Matias Kirst

Dr. Kirst têm mestrado em Genética e Melhoramento pela Universidade Federal de Viçosa, Ph.D. em Genética e em Ciências Genômicas pela North Carolina State University, e pós-doutoramento em Cornell. Desde 2005, Matias é Professor Associado em Genética Quantitativa e Genômica na Escola de Recursos Florestais e Conservação (School of Forest Resources and Conservation) na Universidade da Florida, e membro do Instituto de Genética e do programa de pós-graduação em Biologia Molecular e Celular de Plantas (Plant Molecular and Cellular Biology program). Dr. Kirst também é co-Diretor da Cooperative Forest Genetics Research Program, um programa estadual de melhoramento de coniferas existente a mais de meio século, que conta com oito instituições cooperadoras. Desde 2011, Kirst também é chefe executivo da empresa RAPID Genomics LLC, que atua no desenvolvimento e aplicação de estratégias de genotipagem baseadas em sequenciamento de DNA de última geração (next-generation sequencing). No momento, o pesquisador lidera um grupo de seis estudantes de doutorado e oito técnicos, e participa em 14 bancas de alunos de doutoramento. O grupo de pesquisa também recebe constantemente pesquisadores brasileiros para treinamento nas áreas de pesquisa genômica e genética. O seu grupo de pesquisa é dedicado à identificação de genes que regulam características de interesse para a indústria florestal e agronômica, e desenvolvimento de métodos de genotipagem para aplicação em estratégias de melhoramento de espécies florestais através de seleção genômica. Esse trabalho é financiado por mais de US$6M obtidos desde 2005 através de agências como a National Science Foundation (NSF), Department of Agriculture (USDA) e Departamento de Energia (DOE) nos EUA, e está descrito em 32 artigos científicos publicados em revistas como Science e Proceedings of the National Academy of Sciences USA. Nos primeiros seis anos como pesquisador independent, Dr. Kirst recebeu vários prêmios a nível nacional (Early Career Award pelo Departamento de Energia dos EUA) e local (Outstanding Young Faculty Award, University of Florida), dados para um seleto grupo de jovens pesquisadores. Dr. Kirst também atua como panelista e revisor de projetos para vários programa das agências NSF, DOE e USDA; além de várias agências européias como a Deutsche Forschungsgemeinschaft (Alemanha), Agencies National de la Recherche (França) e a Netherland Association for Scientific Research (Holanda). Matias também é membro do conselho científico para projetos financiados pelo Genome Canada (Project Arborea II) e União Européia (projetos NovelTree and ProCoGen). Kirst é membro do corpo editorial das revistas Genetics and BMC Plant Biology e frequentemente atua como revisor de artigos de jornais de alto impacto como Nature Genetics, Genome Research e Proceedings of the National Academy of Sciences USA.

Informações coletadas do Lattes em 09/10/2022

Acadêmico

Formação acadêmica

Doutorado em Genetics and Genomic Sciences

2000 - 2004

North Caroline State University
Título: Genomic regulation of growth and lignin in Eucalyptus
Orientador: Sederoff, R
Bolsista do(a): North Carolina State University. Grande área: Ciências Biológicas / Área: Genética. Grande Área: Ciências Agrárias / Área: Recursos Florestais e Engenharia Florestal. Setores de atividade: Produção Florestal.

Mestrado em Genética e Melhoramento

1997 - 1999

Universidade Federal de Viçosa
Orientador: Dario Grattapaglia e Acelino Couto Alfenas
Bolsista do(a): Conselho Nacional de Desenvolvimento Científico e Tecnológico, CNPq, Brasil. Grande área: Ciências Agrárias / Área: Agronomia / Subárea: Fitotecnia / Especialidade: Melhoramento Vegetal. Setores de atividade: Produção Florestal.

Graduação em Engenharia Florestal

1991 - 1997

Universidade Federal de Santa Maria

Pós-doutorado

2004 - 2004

Pós-Doutorado. , Cornell University. , Bolsista do(a): National Science Foundation. , Grande área: Ciências Biológicas / Área: Genética. , Grande Área: Ciências Agrárias / Área: Agronomia.

Idiomas

Bandeira representando o idioma Inglês

Compreende Bem, Fala Bem, Lê Bem, Escreve Bem.

Bandeira representando o idioma Português

Compreende Bem, Fala Bem, Lê Bem, Escreve Bem.

Bandeira representando o idioma Francês

Compreende Bem, Fala Bem, Lê Bem, Escreve Bem.

Áreas de atuação

Grande área: Ciências Biológicas / Área: Genética / Subárea: Genômica.

Grande área: Ciências Biológicas / Área: Genética / Subárea: Genética Quantitativa.

Grande área: Ciências Agrárias / Área: Recursos Florestais e Engenharia Florestal / Subárea: Silvicultura/Especialidade: Genética e Melhoramento Florestal.

Grande área: Ciências Biológicas / Área: Genética / Subárea: Genética Vegetal.

Orientou

Juan José Acosta

Association genetics of growth and wood quality traits in loblolly pine; Início: 2012; Tese (Doutorado em Forest Resources and Conservation) - Universidade da Flórida, United States Department of Agriculture; (Orientador);

Leandro Gomide Neves

Genome-wide association analysis of wood quality and growth traits in Populus; Início: 2012; Tese (Doutorado em Forest Resources and Conservation) - Universidade da Flórida, Department of Energy; (Orientador);

Márcio Resende Jr

; Phenotype prediction using genomic selection models; Início: 2012; Tese (Doutorado em Genetics and Genomics) - Universidade da Flórida, Universidade da Flórida; (Orientador);

Cintia Leite Ribeiro

Functional characterization of a regulator of wood biomass composition; Início: 2012; Tese (Doutorado em Plant Molecular and Cellular Biology) - Universidade da Flórida, United States Department of Agriculture; (Orientador);

Annette M

Fahrenkrog; Wood quality regulators in Poplar; Início: 2012; Tese (Doutorado em Plant Molecular and Cellular Biology) - Universidade da Flórida, Fulbright; (Orientador);

Shu Hsu

Bioinformatic analysis of genotyping by sequencing methods; Início: 2012; Tese (Doutorado em Genetics and Genomics) - Universidade da Flórida, Universidade da Flórida; (Orientador);

Carla Cristina Gonçalves Rosado

Análise global da expressão gênica da resposta de defesa de plantas de Eucalyptus à ferrugem (Puccinia psiddi); Início: 2012; Tese (Doutorado em Genética e Melhoramento) - Universidade Federal de Viçosa, Conselho Nacional de Desenvolvimento Científico e Tecnológico; (Coorientador);

Cynthia Maria Silva

Genetic regulation of root development in Populus; 2010; Dissertação (Mestrado em Forest Resources and Conservation) - Universidade da Flórida, Universidade da Flórida; Orientador: Matias Kirst;

Ryan Brown

An integrative genomics approach for identification of genes that control complex traits in plant species; 2010; Dissertação (Mestrado em Forest Resources and Conservation) - Universidade da Flórida, Universidade da Flórida; Orientador: Matias Kirst;

Vanda Marisa da Rosa Milheiro Lourenço

Robust linear regression methods with application to genetic association studies of quantitative traits; 2011; Tese (Doutorado em Estatística e Processos Estocásticos) - Instituto Superior Técnico de Lisboa,; Coorientador: Matias Kirst;

Evandro Novaes

Integrating Genomics and Quantitative Genetics for Discovery of Genes that Regulate Bioenergy Traits in Woody Species; 2010; Tese (Doutorado em Forest Resources and Conservation) - University of Florida, Department of Energy; Orientador: Matias Kirst;

Derek Drost

The genetic regulation of gene expression, transcriptional networks, and leaf development in the perennial model plant Populus; 2009; Tese (Doutorado em Plant Molecular and Cellular Biology) - Universidade da Flórida, Department of Energy; Orientador: Matias Kirst;

Produções bibliográficas

  • Harfouche, Antoine ; Meilan, Richard ; Kirst, Matias ; Morgante, Michele ; Boerjan, Wout ; Sabatti, Maurizio ; Scarascia Mugnozza, Giuseppe . Accelerating the domestication of forest trees in a changing world. Trends in Plant Science , v. 17, p. 64-72, 2012.

  • Resende, M. F. R. ; Muñoz, P. ; Acosta, J. J. ; Peter, G. F. ; Davis, J. M. ; GRATTAPAGLIA, D. ; Resende, M. D. V. ; KIRST, M. . Accelerating the domestication of trees using genomic selection: accuracy of prediction models across ages and environments. New Phytologist (Print) , v. 193, p. 617-624, 2012.

  • Villar, Emilie ; Klopp, Christophe ; Noirot, Céline ; Novaes, Evandro ; KIRST, M. ; Plomion, Christophe ; Gion, Jean-Marc . RNA-Seq reveals genotype-specific molecular responses to water deficit in eucalyptus. BMC Genomics , v. 12, p. 538, 2011.

  • Prosdocimi, Francisco ; Bittencourt, Daniela ; da Silva, Felipe Rodrigues ; Kirst, Matias ; Motta, Paulo C. ; Rech, Elibio L. ; Dias-Neto, Emmanuel . Spinning Gland Transcriptomics from Two Main Clades of Spiders (Order: Araneae) - Insights on Their Molecular, Anatomical and Behavioral Evolution. Plos One , v. 6, p. e21634, 2011.

  • Neves, Leandro G ; MC Mamani, Eva ; Alfenas, Acelino C ; Kirst, Matias ; Grattapaglia, Dario . A high-density transcript linkage map with 1,845 expressed genes positioned by microarray-based Single Feature Polymorphisms (SFP) in Eucalyptus. BMC Genomics , v. 12, p. 189, 2011.

  • Grattapaglia, Dario ; Silva-Junior, Orzenil B ; Kirst, Matias ; de Lima, Bruno ; Faria, Danielle A ; Pappas, Georgios J . High-throughput SNP genotyping in the highly heterozygous genome of Eucalyptus: assay success, polymorphism and transferability across species. BMC Plant Biology (Online) , v. 11, p. 65, 2011.

  • Lourenco, V. M. ; Pires, A. M. ; KIRST, M. . Robust linear regression methods in association studies. Bioinformatics (Oxford. Print) , v. 27, p. 815-821, 2011.

  • Novaes, E. ; KIRST, M. ; Chiang, V. ; Winter-Sederoff, H. ; SEDEROFF, R. . Lignin and Biomass: A Negative Correlation for Wood Formation and Lignin Content in Trees. Plant Physiology (Bethesda) , v. 154, p. 555-561, 2010.

  • Mattiello, Lucia ; Kirst, Matias ; da Silva, Felipe R ; Jorge, Renato A ; Menossi, Marcelo . Transcriptional profile of maize roots under acid soil growth. BMC Plant Biology (Online) , v. 10, p. 196, 2010.

  • Visscher, Anne M. ; Paul, Anna-Lisa ; Kirst, Matias ; Guy, Charles L. ; Schuerger, Andrew C. ; Ferl, Robert J. ; Bassham, Diane . Growth Performance and Root Transcriptome Remodeling of Arabidopsis in Response to Mars-Like Levels of Magnesium Sulfate. Plos One , v. 5, p. e12348, 2010.

  • Drost, D. R. ; Benedict, C. I. ; Berg, A. ; Novaes, E. ; Novaes, C. R. D. B. ; YU, Q. ; Dervinis, C. ; Maia, J. M. ; Yap, J. ; Miles, B. ; KIRST, M. . Diversification in the genetic architecture of gene expression and transcriptional networks in organ differentiation of Populus. Proceedings of the National Academy of Sciences of the United States of America , v. 107, p. 8492-8497, 2010.

  • Krill, Allison M. ; Kirst, Matias ; Kochian, Leon V. ; Buckler, Edward S. ; Hoekenga, Owen A. ; Zhang, Baohong . Association and Linkage Analysis of Aluminum Tolerance Genes in Maize. Plos One , v. 5, p. e9958, 2010.

  • SEDEROFF, R. ; Myburg, A. ; KIRST, M. . Genomics, Domestication, and Evolution of Forest Trees. Cold Spring Harbor Symposia on Quantitative Biology , v. 74, p. 303-317, 2010.

  • Drost, Derek R. ; Novaes, Evandro ; Boaventura-Novaes, Carolina ; Benedict, Catherine I. ; Brown, Ryan S. ; Yin, Tongming ; Tuskan, Gerald A. ; Kirst, Matias . A microarray-based genotyping and genetic mapping approach for highly heterozygous outcrossing species enables localization of a large fraction of the unassembled genome sequence. Plant Journal (Print) , v. 58, p. 1054-1067, 2009.

  • Visscher, A.M. ; Paul, A.-L. ; KIRST, M. ; Alling, A.K. ; Silverstone, S. ; Nechitailo, G. ; Nelson, M. ; Dempster, W.F. ; Van Thillo, M. ; Allen, J.P. ; Ferl, R.J. . Effects of a Spaceflight Environment on Heritable Changes in Wheat Gene Expression. Astrobiology (Larchmont) , v. 9, p. 359-367, 2009.

  • Grattapaglia, Dario ; Plomion, Christophe ; Kirst, Matias ; Sederoff, Ronald R . Genomics of growth traits in forest trees. Current Opinion in Plant Biology , v. 12, p. 148-156, 2009.

  • Novaes, Evandro ; Osorio, Luis ; Drost, Derek R. ; Miles, Brianna L. ; Boaventura-Novaes, Carolina R. D. ; Benedict, Catherine ; Dervinis, Christopher ; Yu, Qibin ; Sykes, Robert ; Davis, Mark ; Martin, Timothy A. ; Peter, Gary F. ; Kirst, Matias . Quantitative genetic analysis of biomass and wood chemistry of. New Phytologist (Print) , v. 182, p. 878-890, 2009.

  • Brunings, A.M. ; Datnoff, L.E. ; Ma, J.F. ; Mitani, N. ; Nagamura, Y. ; Rathinasabapathi, B. ; KIRST, M. . Differential gene expression of rice in response to silicon and rice blast fungus. Annals of Applied Biology , v. 155, p. 161-170, 2009.

  • Novaes, Evandro ; Drost, Derek R ; Farmerie, William G ; Pappas, Georgios J ; Grattapaglia, Dario ; Sederoff, Ronald R ; Kirst, Matias . High-throughput gene and SNP discovery in Eucalyptus grandis, an uncharacterized genome. BMC Genomics , v. 9, p. 312, 2008.

  • Ma, C.-X. ; YU, Q. ; Berg, A. ; Drost, D. ; Novaes, E. ; Fu, G. ; Yap, J. S. ; Tan, A. ; KIRST, M. ; Cui, Y. ; Wu, R. . A Statistical Model for Testing the Pleiotropic Control of Phenotypic Plasticity for a Count Trait. Genetics (Austin, Tex.) , v. 179, p. 627-636, 2008.

  • Quesada, Tania ; Li, Zhen ; Dervinis, Christopher ; Li, Yao ; Bocock, Philip N. ; Tuskan, Gerald A. ; Casella, George ; Davis, John. M. ; Kirst, Matias . Comparative analysis of the transcriptomes of and suggests extensive evolution of gene expression regulation in angiosperms. New Phytologist (Print) , v. 180, p. 408-420, 2008.

  • Maron, Lyza G. ; Kirst, Matias ; Mao, Chuanzao ; Milner, Matthew J. ; Menossi, Marcelo ; Kochian, Leon V. . Transcriptional profiling of aluminum toxicity and tolerance responses in maize roots. New Phytologist (Print) , v. 179, p. 116-128, 2008.

  • Grattapaglia, Dario ; Kirst, Matias . Eucalyptus applied genomics: from gene sequences to breeding tools. New Phytologist (Print) , v. 179, p. 911-929, 2008.

  • Gore, Michael ; Bradbury, Peter ; Hogers, René ; Kirst, Matias ; Verstege, Esther ; van Oeveren, Jan ; Peleman, Johan ; Buckler, Edward ; van Eijk, Michiel . Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes. Crop Science , v. 47, p. S-135, 2007.

  • KIRST, M. ; CALDO, R. ; CASATI, P. ; TANIMOTO, G. ; WALBOT, V. ; WISE, R. ; BUCKLER, E. . Genetic diversity contribution to errors in short-oligonucleotide microarray analysis. Journal of Plant Biotechnology , v. 4, p. 489-498, 2006.

  • Tuskan, G. A. DiFazio, S. Jansson, S. Bohlmann, J. Grigoriev, I. Hellsten, U. Putnam, N. RALPH, S. Rombauts, S. Salamov, A. Schein, J. Sterck, L. Aerts, A. Bhalerao, R. R. Bhalerao, R. P. Blaudez, D. Boerjan, W. Brun, A. Brunner, A. Busov, V. Campbell, M. Carlson, J. Chalot, M. Chapman, J. Chen, G.-L. , et al. Cooper, D. Coutinho, P. M. Couturier, J. Covert, S. Cronk, Q. Cunningham, R. Davis, J. Degroeve, S. Dejardin, A. dePamphilis, C. Detter, J. Dirks, B. Dubchak, I. Duplessis, S. Ehlting, J. KIRST, M. ; The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray). Science (New York, N.Y.) , v. 313, p. 1596-1604, 2006.

  • Tieman, D.M ; ZEIGLER, M. ; SCHMELZ, E. ; TAYLOR, M. ; BLISS, P. ; KIRST, M. ; KLEE, H. . Identification of loci affecting flavour volatile emissions in tomato fruits. Journal of Experimental Botany , v. 57, p. 887-896, 2006.

  • KIRST, M. ; BASTEN, C. J. ; MYRBURG, A. ; ZENG, Z. ; SEDEROFF, R. . Genetic architecture of transcript level variation in differentiating xylem of Eucalyptus hybrids.. Genetics (Austin, Tex.) , v. 169, p. 2295-2303, 2005.

  • KIRST, M. ; CORDEIRO, C. ; REZENDE, G. ; GRATTAPAGLIA, D. . Power of microsatellite markers for fingerprinting and parentage analysis in Eucalyptus grandis breeding populations. Journal of Heredity , v. 96, p. 161-166, 2005.

  • EGERTSDOTTER, U. ; ZYL, L. V. ; MACKAY, J. ; PETER, G. ; KIRST, M. ; CLARK, C. ; WHETTEN, R. ; SEDEROFF, R. . Gene expression during formation of earlywood and latewood in loblolly pine: expression profiles of 350 genes. BMC Plant Biology (Online) , v. 6, p. 654-663, 2004.

  • KIRST, M. ; MYRBURG, A. ; KIRST, M. E. ; SCOTT, J. ; SEDEROFF, R. . Quantitative analysis of transcript variation on microarrays reveals coordinated downregulation of lignin gene transcripts associated with two quantitative trait loci for growth in a Eucalyptus hybrid backcross. Plant Physiology (Bethesda) , v. 135, p. 2368-2378, 2004.

  • KIRST, M. ; BAUCOM, C. ; JOHNSON, A. ; ULRICH, E. ; K. Hubbard ; STAGGS, R. ; PAULE, C. ; RETZEL, E. ; WHETTEN, R. ; SEDEROFF, R. . Apparent homology of expressed genes from wood-forming tissues of loblolly pine (Pinus taeda L.) with Arabidopsis thaliana. PNAS. Proceedings of the National Academy of Sciences of the United States of America , v. 100, p. 7383-7388, 2003.

  • Brondani, R.P.V ; Gaiotto, F.A ; Missiaggia, A.A ; KIRST, M. ; Gribel, R. ; GRATTAPAGLIA, D. . Microsatellite markers for Ceiba pentandra (Bombacaceae), and endangered tree species of the Amazon forest. Molecular Ecology Notes , v. 3, p. 177-179, 2003.

  • KIRST, M. ; YU, Q. . Genetical genomics: successes and prospects in plants. In: R.K. Varshney and R. Tuberosa. (Org.). Genomics-Assisted Crop Improvement. Heidelberg, Berlin,: Springer, Heidelberg,, 2006, v. , p. -.

  • MYRBURG, A. ; POTTS, B. ; MARQUES, C. ; KIRST, M. ; GION, M. ; GRATTAPAGLIA, D. ; J. Grima-Pettenati . Genome mapping and molecular breeding in Eucalyptus: Molecular domestication of a major fiber crop. In: C. Kole. (Org.). Genome Mapping and Molecular Breeding - Vol. 6: Forest Trees. Heidelberg, Berlin, New York,: Springer, 2006, v. , p. -.

  • KIRST, M. ; MYRBURG, A. ; SEDEROFF, R. . Genetic mapping in forest trees: markers, linkage analysis and genomics.. In: J.K Setlow. (Org.). Genetic Engineering, Principles and Methods. : Kluwer Academic/Plenum Publishers, 2004, v. 26, p. -.

  • Munoz, Patricio ; Resende, Marcio ; Peter, Gary ; Huber, Dudley ; Kirst, Matias ; Quesada, Tania . Effect of BLUP prediction on genomic selection: practical considerations to achieve greater accuracy in genomic selection. In: IUFRO Tree Biotechnology 2011, 2011, Arraial d'Ajuda. BMC Proceedings.

  • Ribeiro, Cintia ; Novaes, Evandro ; Dervinis, Christopher ; Kirst, Matias . Regulation of biomass growth and carbon partitioning in poplar molecular characterization of a candidate gene. In: IUFRO Tree Biotechnology 2011, 2011, Arraial d'Ajuda. BMC Proceedings.

  • Novaes, Evandro ; Boaventura-Novaes, Carolina ; Coelho, Alexandre ; Kirst, Matias . The transcriptome of a Populus pseudo-backcross identifies genes and pathways co-expressed with monolignol biosynthesis. In: IUFRO Tree Biotechnology 2011, 2011, Arraial d'Ajuda. BMC Proceedings, 2011.

  • Neves, Leandro ; Davis, John ; Barbazuk, Brad ; Kirst, Matias . Targeted sequencing in the loblolly pine (Pinus taeda) megagenome by exome capture. In: IUFRO Tree Biotechnology 2011, 2011, Arraial d'Ajuda. BMC Proceedings, 2011.

  • Resende, Marcio FR ; Muñoz Del Valle, Patricio R ; Acosta, Juan J ; Resende, Marcos DV ; Grattapaglia, Dario ; Kirst, Matias . Stability of Genomic Selection prediction models across ages and environments. In: IUFRO Tree Biotechnology 2011, 2011, Arraial d'Ajuda. BMC Proceedings, 2011.

  • Kirst, Matias ; Resende, Márcio ; Munoz, Patricio ; Neves, Leandro . Capturing and genotyping the genome-wide genetic diversity of trees for association mapping and genomic selection. In: IUFRO Tree Biotechnology 2011, 2011, Arraial dÁjuda. BMC Proceedings, 2011.

  • Neves, Leandro G ; CHAMALA, S. ; Davis, John. M. ; Barbazuk, Brad ; Kirst, Matias . Whole-exome sequencing and genotyping in the loblolly pine (Pinus taeda) megagenome.. In: Plant and Animal Genome XIX Conference, 2011, San Diego. Proceedings of the Plant and Animal Genome XIX Conference, 2011.

  • Resende, Márcio ; Resende, Marcio FR ; Acosta, Juan J ; Muñoz Del Valle, Patricio R ; Quesada, Tania ; Davis, John. M. ; Resende, Marcos DV ; Kirst, Matias . Genomic selection and next-generation genotyping to hyper-accelerate pine breeding. In: Plant and Animal Genome XIX Conference, 2011, San Diego. Proceedings of the Plant and Animal Genome XIX Conference, 2011.

  • Ribeiro, Cintia ; Novaes, Evandro ; Dervinis, Christopher ; Kirst, Matias . Functional analysis of a candidate gene involved in the regulation of biomass growth and carbon partitioning in Populus. In: Plant and Animal Genome XIX Conference, 2011, San Diego. Proceedings of the Plant and Animal Genome XIX Conference, 2011.

  • Prosdocimi, Francisco ; Bittencourt, Daniela ; da Silva, Felipe Rodrigues ; Kirst, Matias ; Motta, Paulo C. ; Rech, Elibio L. . Systems biology of spider webs. In: Plant and Animal Genome XIX Conference, 2011, San Diego. Proceedings of the Plant and Animal Genome XIX Conference, 2011.

  • Novaes, Evandro ; Dervinis, Christopher ; Boaventura-Novaes, Carolina R. D. ; Drost, Derek R. ; Osorio, Luis ; Koch, Karen ; Peter, Gary F. ; Kirst, Matias . Functional characterization of cpg13, a candidate gene for a pleiotropic QTL affecting carbon partitioning and growth in Populus. In: Plant and Animal Genome XVIII Conference, 2010, San Diego. Proceedings of the Plant and Animal Genome XVIII Conference, 2010.

  • Villar, Emilie ; COAT, G. ; BEDON, F. ; NDEKO, A. ; Mabiala, A. ; Novaes, Evandro ; Kirst, Matias ; Plomion, Christophe ; Gion, Jean-Marc . Phenotypic and molecular plasticity of two eucalypts clones in response to water deficit: an integrated approach. In: Plant and Animal Genome XVIII Conference, 2010, San Diego. Proceedings of the Plant and Animal Genome XVIII Conference, 2010.

  • Mattiello, Lucia ; Kirst, Matias ; Jorge, Renato A ; Menossi, Marcelo . Gene expression profiling of maize plants grown on acid soil. In: Plant Biology 2010, 2010, Montreal. Proceedings of the Plant Biology 2010, 2010.

  • RIVIN, C. ; KULHANEK, D. ; KIRSTIN, C. ; Kirst, Matias . Interplay of ABA and GA modulates transcriptome profiles and the developmental fate of maize embryos. In: Plant Biology 2009, 2009, Honolulu. Proceedings of Plant Biology 2009, 2009.

  • Silva-Junior, Orzenil B ; TOGAWA, R. ; Novaes, Evandro ; Faria, Danielle A ; Kirst, Matias ; Pappas, Georgios J ; Grattapaglia, Dario . Genome-level identification of tissue-specific gene expression networks in Populus. In: IUFRO Tree Biotechnology 2009, 2009, Whistler. PRoceedings of the IUFRO Tree Biotechnology 2009, 2009.

  • Novaes, Evandro ; Drost, Derek R. ; Osorio, Luis ; Novaes, C. R. D. B. ; Benedict, Catherine I. ; Dervinis, Christopher ; Sykes, Robert ; Davis, John. M. ; Martin, Timothy A. ; Peter, Gary F. ; Kirst, Matias . Integrative genomics identifies candidate gene for the coordinate regulation of biomass growth and carbon partitioning in Populus. In: IUFRO Tree Biotechnology 2009, 2009, Whistler. Proceedings of the IUFRO Tree Biotechnology 2009, 2009.

  • Kirst, Matias ; Drost, Derek R. ; Novaes, Evandro ; Boaventura-Novaes, Carolina R. D. ; Benedict, Catherine I. . Identification of species-specific superior alleles using genetical genomics. In: IUFRO Tree Biotechnology 2009, 2009, Whistler. Proceedings of the IUFRO Tree Biotechnology 2009, 2009.

  • Drost, Derek R. ; Novaes, Evandro ; Boaventura-Novaes, Carolina R. D. ; Benedict, Catherine I. ; Peter, Gary F. ; Kirst, Matias . An ADP-ribosylation factor-type GTPase is a key regulator of leaf morphology in Populus. In: IUFRO Tree Biotechnology 2009, 2009, Whistler. Proceedings of the IUFRO Tree Biotechnology 2009, 2009.

  • Neves, Leandro G ; Pappas, Georgios J ; PASQUALI, G. ; Kirst, Matias ; Grattapaglia, Dario . Detection and mapping of Single Feature Polymorphisms (SFP) and Gene Expression Markers (GEM) on a high density short oligonucleotide array for Eucalyptus sp. In: IUFRO Tree Biotechnology 2009, 2009, Whistler. Proceedings of the IUFRO Tree Biotechnology 2009, 2009.

  • Benedict, Catherine I. ; Drost, Derek R. ; Novaes, Evandro ; Boaventura-Novaes, Carolina R. D. ; Yu, Qibin ; Dervinis, Christopher ; Maia, J. M. ; Yap, J. ; Miles, Brianna L. ; Peter, Gary F. ; Kirst, Matias . Genome-wide eQTL mapping in xylem, leaf and root identifies tissue-specific hotspots in a Populus trichocarpa X deltoides pedigree. In: Plant and Animal Genome XVII Conference, 2009, San Diego. Proceedings of the Plant and Animal Genome XVII Conference, 2009.

  • Neves, Leandro G ; Pappas, Georgios J ; PASQUALI, G. ; Kirst, Matias ; Grattapaglia, Dario . Advancing to a high density gene-rich map based on single feature polymorphisms in tropical Eucalyptus. In: Plant and Animal Genome XVII Conference, 2009, San Diego. Proceedings of the Plant and Animal Genome XVII Conference, 2009.

  • Drost, Derek R. ; Novaes, Evandro ; Boaventura-Novaes, Carolina R. D. ; Benedict, Catherine I. ; Peter, Gary F. ; Kirst, Matias . Genetical genomics implicates an ADP-ribosylation factor-type GTPase as a key regulator of leaf morphology in Populus trichocarpa and P. deltoides. In: Plant and Animal Genome XVII Conference, 2009, San Diego. Proceedings of the Plant and Animal Genome XVII Conference, 2009.

  • Brunings, A.M. ; Datnoff, L.E. ; Mitani, N. ; Nagamura, Y. ; Rathinasabapathi, B. ; Kirst, Matias . Transcriptome analysis of the silicon-Magnaporthe grisea interaction. In: American Phytopathological Society Centennial Meeting, 2008, Minneapolis. Proceedings of the American Phytopathological Society Centennial Meeting, 2008.

  • Visscher, Anne M. ; Paul, Anna-Lisa ; Kirst, Matias ; Silverstone, S. ; Nechitailo, G. ; Nelson, M. ; Dempster, W.F. ; Allen, J.P. ; Van Thillo, M. ; Ferl, Robert J. . Effects of a spaceflight environment on heritable changes in wheat gene expression. In: 29th International Society for Gravitational Physiology and 24th American Society of Gravitational and Space Biology Joint Meeting, 2008, Angers. Proceedings of the 29th International Society for Gravitational Physiology and 24th American Society of Gravitational and Space Biology Joint Meeting, 2008.

  • VERMERRIS, W. ; ZHAO, J. ; MORSE, A. ; Kirst, Matias ; Davis, John. M. ; Tuskan, Gerald A. . Genome-enabled discovery of carbon allocation genes in Populus. In: 30th Symposium on Biotechnology for Fuels and Chemical, 2008, New Orleans. Proceedings of the 30th Symposium on Biotechnology for Fuels and Chemical, 2008.

  • Novaes, Evandro ; Drost, Derek R. ; Farmerie, William G ; Kirst, Matias . Revealing allelic variation in ESTs of Eucalyptus grandis with massively parallel pyrosequencing. In: Plant & Animal Genomes XVI Conference, 2008, San Diego. Proceedings of the Plant & Animal Genomes XVI Conference, 2008.

  • Drost, Derek R. ; Novaes, Evandro ; Novaes, C. R. D. B. ; Benedict, Catherine I. ; Peter, Gary F. ; Kirst, Matias . Single-feature polymorphism mapping in tree species: Populus microarray data identifies intragenic molecular markers suitable for creation of dense genetic linkage maps. In: Plant & Animal Genomes XVI Conference, 2008, San Diego. Proceedings of the Plant & Animal Genomes XVI Conference, 2008.

  • Benedict, Catherine I. ; Drost, Derek R. ; Novaes, Evandro ; Yu, Qibin ; Miles, Brianna L. ; Boaventura-Novaes, Carolina R. D. ; Dervinis, Christopher ; Peter, Gary F. ; Kirst, Matias . eQTL mapping identifies genes that co-localize with QTL controlling carbon partitioning and allocation in Populus. In: Plant & Animal Genomes XVI Conference, 2008, San Diego. Proceedings of the Plant & Animal Genomes XVI Conference, 2008.

  • Kirst, Matias ; Drost, Derek R. ; Yu, Qibin ; Miles, Brianna L. ; Osorio, Luis ; Boaventura-Novaes, Carolina R. D. ; Benedict, Catherine I. ; Dervinis, Christopher ; Davis, John. M. ; Peter, Gary F. . Uncovering QTLs for carbon allocation and partitioning in a pseudo-backcross pedigree of Populus. In: Plant & Animal Genomes XVI Conference, 2008, San Diego. Proceedings of the Plant & Animal Genomes XVI Conference, 2008.

  • Grattapaglia, Dario ; Novaes, Evandro ; Pappas, Georgios J ; PASQUALI, G. ; Kirst, Matias . Single feature polymorphism discovery and validation in Eucalyptus by pseudo-testcross inheritance and mapping. In: Plant & Animal Genomes XVI Conference, 2008, San Diego. Proceedings of the Plant & Animal Genomes XVI Conference, 2008.

  • Drost, Derek R. ; Novaes, Evandro ; Miles, Brianna L. ; Yu, Qibin ; Osorio, Luis ; Dervinis, Christopher ; Peter, Gary F. ; Kirst, Matias . Toward an understanding of natural variation for carbon allocation and partitioning in Populus: A genetical genomics approach. In: IUFRO Tree Biotechnology 2007, 2007, Ponta Delgada. Proceedings of the IUFRO Tree Biotechnology 2007, 2007.

  • Novaes, Evandro ; Drost, Derek R. ; Farmerie, William G ; Kirst, Matias . Rapid, high-throughput gene discovery in Eucalyptus by massive parallel pyrosequencing. In: IUFRO Tree Biotechnology 2007, 2007, Ponta Delgada. Proceedings of the IUFRO Tree Biotechnology 2007, 2007.

  • EVELAND, A. ; Kirst, Matias ; LATSHAW, W. ; AVIGNE, W. T. ; MCCARTY, D. R. ; KOCH, K. E. . 3 UTR profiling: resolution of differential expression by closely-related transcripts and identification of novel sequences. In: Plant Biology and Botany 2007 Joint Congress, 2007, Chicago. Proceedings of the Plant Biology and Botany 2007 Joint Congress, 2007.

  • RAMIREZ, G. ; Davis, John. M. ; Kirst, Matias . Cytokinin Response regulators in Populus: the As, Bs and Pseudos. In: Plant Biology and Botany 2007 Joint Congress, 2007, Chicago. Proceedings of the Plant Biology and Botany 2007 Joint Congress, 2007.

  • Hoekenga, Owen A. ; Buckler, Edward S. ; Maron, Lyza G. ; MAGALHAES, J. ; Krill, Allison M. ; Kirst, Matias ; LYI, S. M. ; ROSE, J. ; THANNHAUSER, T. ; Kochian, Leon V. . Joint linkage-association analysis of aluminum tolerance in maize. In: Plant & Animal Genomes XV Conference, 2007, San Diego. Proceedings of the Plant & Animal Genomes XV Conference, 2007.

  • Gore, Michael ; Bradbury, Peter ; Hogers, René ; Kirst, Matias ; Verstege, Esther ; van Oeveren, Jan ; Peleman, Johan ; Buckler, Edward S. ; van Eijk, Michiel . Optimized target preparation method for single-feature polymorphism detection in maize. In: 48th Annual Maize Genetics Conference, 2006, Asilomar. Proceedings of the 48th Annual Maize Genetics Conference, 2006.

  • Hoekenga, Owen A. ; Buckler, Edward S. ; Maron, Lyza G. ; MAGALHAES, J. ; Kirst, Matias ; ISAACSON, T. ; Krill, Allison M. ; LYI, S. M. ; ROSE, J. ; THANNHAUSER, T. ; Kochian, Leon V. . Interdisciplinary analysis of aluminum tolerance in maize. In: Plant & Animal Genomes XIV Conference, 2006, San Diego. Proceedings of the Plant & Animal Genomes XIV Conference, 2006.

  • Quesada, Tania ; DiFazio, S. ; Tuskan, Gerald A. ; Davis, John. M. ; Kirst, Matias . Chromatin domains in the evolution of wood. In: Plant & Animal Genomes XIV Conference, 2006, San Diego. Proceedings of the Plant & Animal Genomes XIV Conference, 2006.

  • van Eijk, Michiel ; Bradbury, Peter ; Gore, Michael ; Hogers, René ; Kirst, Matias ; Verstege, Esther ; van Oeveren, Jan ; Buckler, Edward S. . Optimized target preparation method for single-feature polymorphism detection in maize. In: Plant & Animal Genomes XIV Conference, 2006, San Diego. Proceedings of the Plant & Animal Genomes XIV Conference, 2006.

  • Kirst, Matias . Capturing and genotyping the genome-wide diversity of trees for association mapping and genomic selection. 2011. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias . 20 years in 5: Hyper-accelerating genetic gain and adaptation of conifers using genomic selection. 2011. (Apresentação de Trabalho/Outra).

  • Kirst, Matias . Hyper-accelerating breeding and adaptation of loblolly pine using genomic selection. 2011. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias . Accelerating the domestication of bioenergy trees: from genetical genomics to genomic selection. 2011. (Apresentação de Trabalho/Simpósio).

  • Kirst, Matias . Evolutionary conservation of gene networks implicated in lignin biosynthesis. 2011. (Apresentação de Trabalho/Outra).

  • Kirst, Matias . Genomic selection to hyper-accelerate tree breeding. 2010. (Apresentação de Trabalho/Seminário).

  • Kirst, Matias . Populus genome networks and the regulation of growth and development. 2010. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias . Evolution of poplar transcriptional networks and regulation of growth and development. 2010. (Apresentação de Trabalho/Simpósio).

  • Kirst, Matias . Integrating quantiative genetics and genomics. 2009. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias . Gene and microRNA expression QTL analysis unravels transcription networks implicated in Populus growth and development. 2009. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias . The Eucalypts Genome Network (EUCAGEN) and the sequencing of the E. grandis genome. 2009. (Apresentação de Trabalho/Simpósio).

  • Brunings, A.M. ; Datnoff, L.E. ; Ma, J.F. ; Mitani, N. ; Nagamura, Y. ; Rathinasabapathi, B. ; Kirst, Matias . Transcriptome analysis of the silicon-Magnaporthe grisea interaction. 2008. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias ; Drost, Derek R. ; Novaes, Evandro . Bridging genomics and breeding in hardwood tree models. 2008. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias . Plant gene expression regulatory networks. 2008. (Apresentação de Trabalho/Congresso).

  • Kirst, Matias . Massively-parallel pyrosequencing and genotyping for a new paradigm in genome and complex trait analysis. 2007. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias . Genetical genomic regulation of wood physical and chemical properties. 2006. (Apresentação de Trabalho/Conferência ou palestra).

  • Kirst, Matias . Genetical genomics: Dissecting the genetic control of gene expression, networks and traits. 2006. (Apresentação de Trabalho/Conferência ou palestra).

Projetos de pesquisa

  • 2010 - 2015

    A systems biology, whole-genome association analysis of the molecular regulation of biomass growth and composition in Populus deltoides, Descrição: Populus deltoides is one of the principal short rotation woody crop species for providing clean, renewable and sustainable fuels in North America, because of its fast perennial growth habit and wide natural distribution. While P. deltoides provides the benefits of an ideal bioenergy crop, the genes that regulate biomass productivity and carbon partitioning into lignocellulosics are largely unknown, despite their critical relevance for germplasm improvement. Recently, association genetics has become the primary approach for rapid identification of genes that regulate complex traits in humans, animal and agricultural/forestry crops. Poplars are particularly suited to unveil the molecular basis of biomass productivity and composition using this approach because of low domestication, large open-pollinated native populations, and high levels of genetic and phenotypic variation. However, with few exceptions, association genetic studies in plants have been hampered by limited gene and polymorphism coverage, and restricted multiplex capacity of genotyping platforms. Here we propose a radically different approach for association mapping, which combines sequence-capture followed by high-throughput sequencing to genotype coding and regulatory sequences in the whole-genome of P. deltoides. To identify genetic polymorphisms that regulate biomass productivity and carbon partitioning in P. deltoides we will: (1) optimize sequence-capture for unbiased, high-throughput and low cost recovery of target coding and regulatory sequences in P. deltoides; (2) carry out whole-genome genotyping of a P. deltoides unstructured population for association mapping; and (3) identify significant SNP-trait associations with biomass growth and carbon partitioning to define genes and alleles that regulate trait variation. This proposal utilizes an advanced approach (association genetics) coupled to highly sophisticate genomic tools (sequence-capture and high-throughput sequencing) to uncover genes t. , Situação: Em andamento; Natureza: Pesquisa. , Alunos envolvidos: Doutorado: (2) . , Integrantes: Matias Kirst - Coordenador., Financiador(es): Department of Energy - Auxílio financeiro.

  • 2010 - 2011

    Development of genotyping by sequencing to hyper-accelerate pine breeding, Descrição: Genotyping of DNA sequence polymorphisms is the foundation for genetic studies. For marker-assisted breeding, genotyping large numbers of markers in large populations, at low-cost, is critical. Here we propose to develop a novel strategy to genotype tens to hundreds of thousands of markers based on high-throughput sequencing of reduced-representation libraries, or genotyping-by-sequencing (GBS). GBS will be developed for loblolly pine, but it can be readily applied to other species. GBS will be used for genotyping a breeding population of loblolly pine, and marker-based prediction models will be developed to identify parental crosses that produce optimal allelic combinations. These models will also be applied for selection of individuals that are most suitable for targeted uses (e.g. bioenergy or pulp production) based on their genetic make-up, by-passing the need for lengthy and costly selection trials. The research proposed impacts all three target areas of the IFAS Innovation Fund Program: (1) it establishes new tools that provide a competitive advantage to IFAS faculty in projects that require high-throughput, low-cost genotyping; (2) it creates the foundation to hyper-accelerate loblolly pine breeding, reducing the cycle of breeding and selection by up to ⅔, vastly improving the competitiveness of the forestry industry in the southeastern US; and (3) it launches a new era of surgical breeding, for development and commercialization of forestry cultivars that have specific allelic composition optimized for high biomass productivity and quality.. , Situação: Concluído; Natureza: Pesquisa. , Integrantes: Matias Kirst - Coordenador / Casella, George - Integrante., Financiador(es): Universidade da Flórida - Auxílio financeiro.

  • 2009 - 2013

    Advanced pine breeding through association genetics and biotechnology, Descrição: The US southern states generate almost one fifth of the global wood supply, mostly from loblolly pine (Pinus taeda). Wood productivity in P. taeda plantations is limited by water and nitrogen availability, and diseases such as fusiform rust and pitch canker. Unfortunately, conventional breeding to overcome these limitations is slow and somewhat limited. Therefore new technologies need to be aggressively developed and integrated with classical breeding to accelerate gains in raw material yield and quality. Training of plant geneticists with the capability to integrate classic and modern genetic improvement approaches will be critical to this effort. Recently, the PDs participated in large association genetic studies that identified genes associated with biomass growth under optimal and nitrogen restricted conditions, wood quality, disease resistance and drought tolerance in loblolly pine. The research component of this integrated project will focus on understanding the function of the identified genes that underlie these traits and pyramiding them into elite varietals that can be clonally propagated and established on commercial plantations. The education component will train students and stakeholders to integrate biotechnology with classical tree breeding in a customized graduate curriculum. The needs addressed in this proposal are well aligned with the objective of the USDA AFRI Plant Breeding and Education Program to increase the number of students trained in plant breeding and to generate valuable information for classical breeding and biotechnology approaches to enhance drought tolerance, nitrogen utilization, and plant disease resistance. All activities will be coordinated with a group of major forestry stakeholders.. , Situação: Em andamento; Natureza: Pesquisa. , Alunos envolvidos: Doutorado: (3) . , Integrantes: Matias Kirst - Coordenador / Martin, Timothy A. - Integrante / Peter, Gary F. - Integrante / Davis, John. M. - Integrante / Huber, Dudley - Integrante., Financiador(es): United States Department of Agriculture - Auxílio financeiro.

  • 2009 - 2012

    Mechanism of carbon partitioning regulation by cpg13 in the bioenergy woody crop poplar, Descrição: Lignin is considered the main obstacle for the efficient bioconversion of wood cellulosics to renewable fuels, and its content is directly and inversely proportional to fermentable sugar yield. Lignin content is also highly negatively correlated with biomass productivity in several woody species. This negative correlation is evident in our own studies in Populus and Eucalyptus, where we observe that high levels of lignin and expression of genes coding for lignin-associated enzymes are correlated with slower growth and lower cellulose content. Therefore, identifying the gene(s) implicated in the control of carbon partitioning to cellulosics and lignin, and the mechanism of this regulation, is critical for the development of improved plant feedstock for bioenergy. The immediate outcome would not only be the development of woody plant feedstocks with higher yields of fermentable sugars, but also greater biomass productivity. We have now identified the cpg13 gene (carbon partitioning and growth in LG13) as a key regulator of carbon partitioning to lignin and cellulose, and whole plant biomass productivity in a segregating Populus hybrid population. The locus cpg13 explains 41% and 65% of the heritable variation in lignin and cellulose content, and has major effects on several biomass productivity traits. However, while results from our recent work indicate that cpg13 regulates carbon partitioning and growth, the molecular mechanism of this regulation is entirely unknown. Cpg13 and its closest homologue in Arabidopsis are currently annotated as genes with unknown function. In both species, they are preferentially expressed in tissues undergoing vascular development, and have been identified in independent studies as being associated with the expression of genes involved in lignin and carbohydrate biosynthesis. Based on our previous results we hypothesize that cpg13 regulates the metabolic competition for carbon, affecting growth, cellulose biosynthesis and lignification. , Situação: Em andamento; Natureza: Pesquisa. , Alunos envolvidos: Doutorado: (1) . , Integrantes: Matias Kirst - Coordenador / Peter, Gary F. - Integrante., Financiador(es): United States Department of Agriculture - Auxílio financeiro.

  • 2009 - 2012

    Identification and functional characterization of insect resistance genes in poplar using forward genetics, Descrição: The research plan includes three complementary experimental approaches. Specific aim #1) we will conduct phenotypic analyses of candidate lines using biologically replicated trees and choice feeding and no-choice developmental bioassays. This study will identify the best IR lines (maximum of 20) for molecular characterization in aims #2 and #3. Specific aim #2) we will map the location of T-DNA inserts in each line and determine which gene(s) in proximity to the T-DNA displays activated gene expression in order to identify the activated gene conferring IR. Specific aim #3) for each line we will characterize the function of the activated gene by: a) measuring constitutive expression of the activated gene across tissues; b) using oligo microarrays to measure global transcript abundance in control and insect attacked leaves of mutant and wild-type lines; and c) generating new transgenic poplar lines to confirm the activated gene is responsible for IR. The education plan has two components designed to enhance undergraduate and graduate education in genomics. Educational aim #1) each year multiple graduate and undergraduate students will receive intensive training in genomics through their participation in all three research aims and the following courses taught by the PI: Ecological and Evolutionary Genomics Seminar, Molecular Biology Techniques, and a new course in Genomics. Furthermore, students will present their findings in peer reviewed journals and at scientific conferences. Education aim #2) a substantial number of undergraduates will receive invaluable hands-on training in a new expanded computer lab for the Genomics course with microarray analysis exercises using tools for gene expression clustering, gene ontology, and mapping expression data to biochemical pathways.. , Situação: Em andamento; Natureza: Pesquisa. , Alunos envolvidos: Doutorado: (1) . , Integrantes: Matias Kirst - Integrante / Steve Ralph - Coordenador / Wenhao Dai - Integrante., Financiador(es): National Science Foundation - Auxílio financeiro.

  • 2008 - 2009

    Gene expression networks and their regulators in a model perennial plant, Descrição: A comprehensive description of the genetic regulation of gene expression will be generated, defining the contribution of specific and interacting genetic loci to transcript abundance variation. Gene expression networks will be identified and genetic models for their control will be generated for different plant tissues, creating the first description of their ontogeny, diversity and conservation. Network regulators and the mechanisms by which they control downstream network elements will also be pursued. To achieve these objectives, whole-genome microarrays will be analyzed in combination with the Populus trichocarpa genome sequence. QTL for gene transcript abundance variation (eQTL) will be mapped, defining number and location of eQTL, additive and epistatic effects, and the proportion of the phenotypic variation explained by each locus. Comparison of the location of gene sequence and its corresponding eQTL will define cis or trans-acting regulation, and candidate regulatory genes. Gene expression networks will be defined based on coordinated regulation of functionally related genes and shared eQTLs (eQTL hotspots). Poplar is an ideal model plant for such analysis because the genome of P. trichocarpa has been sequenced, detailed genetic maps with ample microsatellite coverage have been constructed, and whole-genome microarrays are publicly available. Large, genetically variable and widely segregating populations, which are essential for QTL identification, are also readily available and can be clonally replicated easily. More important, extensive preliminary data that supports the study proposed here has been created. This data includes whole- genome transcript profiles for a large progeny (200 individuals) of Populus, in three developmentally distinct plant organs: differentiating secondary xylem, whole roots and mature leaves. The feasibility of mapping QTL for gene expression in woody plants, and the application of this approach for defining the genetic mechanis. , Situação: Concluído; Natureza: Pesquisa. , Alunos envolvidos: Mestrado acadêmico: (1) / Mestrado profissional: (1) . , Integrantes: Matias Kirst - Coordenador., Financiador(es): National Science Foundation - Auxílio financeiro.

  • 2006 - 2008

    Genes for more efficient land use and conversion of forest trees into wood products. The Consortium for Plant Biotechnology Research, Situação: Concluído; Natureza: Pesquisa. , Integrantes: Matias Kirst - Integrante / Peter, G., - Coordenador., Financiador(es): Consortium for Plant Biotechnology Research - Auxílio financeiro.

  • 2006 - 2007

    High-throughput SNP genotyping and bioinformatics pipeline for association mapping in complex genomes, Descrição: In this project we will establish a bridge among three new (Kirst, McIntyre, Riva) and two existing UF faculty (Casella, Davis) to create a novel capacity in generating and managing genetic information at UF. This project will deliver a useful bioinformatics pipeline adaptable to genetic information from a broad spectrum of species, build working relationships and synergies across colleges and disciplines as envisioned in the creation of the UF Genetics Institute, and lead higher competitiveness in future application for funding from tNSF (Genes & Genomes, or Plant Genome) and/or USDA-NRI (Genes & Development). If completely successful, UF will enjoy a new capacity for cost-effective determination of gene (functional DNA) variation in organisms across a large range of genome sizes. This would prevent continued outsourcing of these services to other universities or companies, a required standard practice in current extramurally funded projects. Project activities led by College of Medicine faculty (Riva, McIntyre) will focus on bioinformatics: designing and subsequently fine-tuning software to discover natural gene sequence variation in large publicly available databases, designing reliable probes on gene chips and making the resulting genotype data available in a useful form for UF biologists. College of Liberal Arts & Sciences faculty (Casella) will lead on developing and tuning statistical tools to reliably detect genetic variation on gene chips. IFAS faculty (Kirst, Davis) will lead on overall project coordination, implementing the genotyping assays, testing methods for reducing complexity of very large genomes required for the success of gene chips and on selecting appropriate materials for the genotyping experiments thereby ensuring high quality preliminary data for the grant proposal.. , Situação: Concluído; Natureza: Pesquisa. , Alunos envolvidos: Mestrado acadêmico: (1) . , Integrantes: Matias Kirst - Coordenador / Lauren McIntyre - Integrante / Alberto Riva - Integrante., Financiador(es): Universidade da Flórida - Auxílio financeiro.

  • 2005 - 2009

    Association genetics of natural genetic diversity and complex traits in pine, Descrição: Our long term goal is to genetically dissect complex traits and understand the relationship between naturally occurring genetic and phenotypic variation in forest trees. In this project we will identify relationships between naturally occurring genetic and phenotypic variation in Pinus taeda L.. Loblolly pine, a gymnosperm, is well-positioned phylogenetically to help us understand the evolution of adaptive traits in land plants. To assign biological roles to genes of unknown function and to define gene networks of adaptive significance, a population genomic approach (association genetics) will be used to study how allelic sequence variation among individuals results in phenotypic differences. Specifically, we seek to (1) identify all common alleles in 5000 genes, creating a first-of-its-kind community resource of genomic sequence for loblolly pine, and (2) associate at 1000 loci allelic (SNP) variation with phenotypic variation. Phenotypes will be measured in large populations of clonally propagated trees that represent the widest possible spectrum of genetic variation in the species. The traits will include chemical and anatomical wood properties, resistance to disease incited by biotrophic and necrotrophic fungi, gene expression measured in a 14k cDNA microarray, and expression of gene family members using real-time quantitative PCR. To aid interpretation of associations we will measure linkage disequilibrium in ten selected 100kb regions of the genome. This proposed research will leverage investments in EST projects and large insert library construction to support identification of alleles and relate them to natural phenotypic variation. Our overarching goal of community coalescence will be accomplished by integrating loblolly pine genotyping, phenotyping and analytical efforts across the United States and making them available through the Treegenes database.. , Situação: Concluído; Natureza: Pesquisa. , Alunos envolvidos: Mestrado acadêmico: (1) . , Integrantes: Matias Kirst - Integrante / David Neale - Coordenador., Financiador(es): National Science Foundation - Auxílio financeiro.

  • 2005 - 2008

    Genomic mechanisms of carbon allocation and partitioning in poplar, Descrição: 1. Rationale and scientific objectives. The efficiency of carbon sequestration may be increased by modification of carbon allocation (i.e. carbon movement into sink tissues, such as roots) and partitioning to favor more recalcitrant chemical components (i.e. lignin). Genetic modification or traditional breeding can enhance the efficiency of carbon sequestration, but knowledge of molecular mechanisms that control carbon allocation and partitioning is essential. We propose to uncover the molecular basis of quantitative variation in carbon allocation and partitioning through quantitative genetic analysis of a population of Populus deltoides and P. trichocarpa hybrids in combination with the genome sequence and new genomic tools. Our hypothesis is that a significant component of the variation for these traits arises as a consequence of genetic variation that modifies gene expression, and is influenced by environmental cues. 2. Methodology. Genes and pathways that contribute to quantitative variation in carbon allocation and partitioning will be identified by integrating information from the poplar genome sequence, traditional methods of quantitative genetics (QTL analysis) and new genomic tools (microarrays). Carbon allocation and partitioning will be genetically dissected by QTL analysis of a pseudo-backcross population of P. deltoides X F1 hybrid (P. deltoides X P. trichocarpa) growing in two nitrogen (adequate and luxuriant) regimens. Near complete genome sequence in poplar enables comprehensive screening of genes in QTL intervals for differential regulation of gene expression between QTL alleles using long oligonucleotide microarrays. Genes differentially expressed and correlated with quantitative allocation and partitioning phenotypes will identify candidates for further functional characterization. 3. Broader impacts: In addition to providing markers immediately useful for marker-aided breeding and selection, this study will also identify targets for genetic mod. , Situação: Concluído; Natureza: Pesquisa. , Alunos envolvidos: Doutorado: (2) . , Integrantes: Matias Kirst - Coordenador / Martin, Timothy A. - Integrante / Peter, Gary F. - Integrante., Financiador(es): Department of Energy - Auxílio financeiro.

  • 2005 - 2007

    Genomic regulation of growth and lignin in Eucalyptus, Descrição: Genomics provides powerful insights into genome organization, function and evolution. The utilization of this information in tree improvement for wood biomass production and quality traits has great potential but is only starting to be realized. We propose to merge QTL analysis with gene expression data generated from microarrays to identify candidate genes for biomass related traits. We have examined genome-wide transcript level variation in a progeny set of 91 individuals from a Eucalyptus globulus x grandis hybrid backcross, mapped with AFLP markers, and segregating for wood density and growth. QTL analysis identified a cluster of QTLs for gene expression (eQTL) of lignin related genes that co-localize with those for growth traits. A strong negative association (R2 = 38%) between wood growth and lignin biosynthetic gene transcripts was identified in the segregating population. A similar negative association between growth and lignin had been observed in loblolly pine and in poplar transgenics suppressed in 4CL gene expression. These results suggest that one or more genes involved in regulation of the lignin biosynthetic pathway have an indirect effect on growth. The limited set of genes included in the microarray of our previous study and the lack of information about genetic location of candidate genes does not allow identification of the specific regulators of the lignin biosynthetic pathway, but provides an initial set of candidates for further evaluation. The purpose of this proposal is to: 1. Verify the quantitative architecture of the genetic variation for growth and lignin content by identifying the QTLs associated with either trait. Based on our previous studies, we expect to identify common QTLs that determine both rapid growth and low lignin content. We expect these loci to regulate either the cell cycle or the flow of carbon into major pathways for cell wall biosynthesis. A major goal of this proposal is to identify the genes that underlie those QTL.. , Situação: Concluído; Natureza: Pesquisa. , Alunos envolvidos: Doutorado: (1) . , Integrantes: Matias Kirst - Integrante / Sederoff, Ronald R - Coordenador., Financiador(es): Consortium for Plant Biotechnology Research - Auxílio financeiro.

Prêmios

2010

Early Career Award, Department of Energy (DOE).

2009

Richard Jones Outstanding New Faculty Award, University of Florida/Institute of Food and Agricultural Sciences.

Histórico profissional

Endereço profissional

  • University of Florida. , 118 Newins-Ziegler Hall, 110410 - Gainesville, - Estados Unidos - Caixa-postal: 110410, Telefone: (352) 8460900, Fax: (352) 8461277

Experiência profissional

2011 - Atual

Rapid Genomics LLC

Vínculo: Fundador e acionista, Enquadramento Funcional: Chief Executive Officer

2010 - Atual

Cooperative Forest Genetics Research Program

Vínculo: Servidor Público, Enquadramento Funcional: Co-Diretor

2005 - 2010

University of Florida

Vínculo: Celetista formal, Enquadramento Funcional: Professor Assistente