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Genome wide selection (GWS) is essential for the genetic improvement of perennial species such as Citrus because of its ability to increase gain per unit time and to enable the efficient selection of characteristics with low heritability. This study assessed GWS efficiency in a population of Citrus and compared it with selection based on phenotypic data. A total of 180 individual trees from a cross between Pera sweet orange (Citrus sinensis Osbeck) and Murcott tangor (Citrus sinensis Osbeck x Citrus reticulata Blanco) were evaluated for 10 characteristics related to fruit quality. The hybrids were genotyped using 5287 DArT_seqTM (diversity arrays technology) molecular markers and their effects on phenotypes were predicted using the random regression - best linear unbiased predictor (rr-BLUP) method. The predictive ability, prediction bias, and accuracy of GWS were estimated to verify its effectiveness for phenotype prediction. The proportion of genetic variance explained by the markers was also computed. The heritability of the traits, as determined by markers, was 16-28%. The predictive ability of these markers ranged from 0.53 to 0.64, and the regression coefficients between predicted and observed phenotypes were close to unity. Over 35% of the genetic variance was accounted for by the markers. Accuracy estimates with GWS were lower than those obtained by phenotypic analysis; however, GWS was superior in terms of genetic gain per unit time. Thus, GWS may be useful for Citrus breeding as it can predict phenotypes early and accurately, and reduce the length of the selection cycle. This study demonstrates the feasibility of genomic selection in Citrus. Made available in DSpace on 2018-01-03T23:18:49Z (GMT). No. of bitstreams: 1 2016M.DeonGMRGenome.pdf: 563165 bytes, checksum: fddf34ba0f27a1535a688be01db2966b (MD5) Previous issue date: 2017-07-14

Made available in DSpace on 2021-06-25T11:16:28Z (GMT). No. of bitstreams: 0 Previous issue date: 2021-01-01 Agence Nationale Des Parcs Nationaux Centre for International Forestry Research Departamento Administrativo de Ciencia, Tecnología e Innovación (COLCIENCIAS) David and Lucile Packard Foundation European Space Agency Leverhulme Trust Gordon and Betty Moore Foundation Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) Fundação de Amparo à Pesquisa do Estado de Goiás European Research Council Belgian Federal Science Policy Office Vlaamse Interuniversitaire Raad Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) National Science Foundation Natural Environment Research Council Royal Society National Geographic Society Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) Tropical forests are the most diverse and productive ecosystems on Earth. While better understanding of these forests is critical for our collective future, until quite recently efforts to measure and monitor them have been largely disconnected. Networking is essential to discover the answers to questions that transcend borders and the horizons of funding agencies. Here we show how a global community is responding to the challenges of tropical ecosystem research with diverse teams measuring forests tree-by-tree in thousands of long-term plots. We review the major scientific discoveries of this work and show how this process is changing tropical forest science. Our core approach involves linking long-term grassroots initiatives with standardized protocols and data management to generate robust scaled-up results. By connecting tropical researchers and elevating their status, our Social Research Network model recognises the key role of the data originator in scientific discovery. Conceived in 1999 with RAINFOR (South America), our permanent plot networks have been adapted to Africa (AfriTRON) and Southeast Asia (T-FORCES) and widely emulated worldwide. Now these multiple initiatives are integrated via ForestPlots.net cyber-infrastructure, linking colleagues from 54 countries across 24 plot networks. Collectively these are transforming understanding of tropical forests and their biospheric role. Together we have discovered how, where and why forest carbon and biodiversity are responding to climate change, and how they feedback on it. This long-term pan-tropical collaboration has revealed a large long-term carbon sink and its trends, as well as making clear which drivers are most important, which forest processes are affected, where they are changing, what the lags are, and the likely future responses of tropical forests as the climate continues to change. By leveraging a remarkably old technology, plot networks are sparking a very modern revolution in tropical forest science. In the future, humanity can benefit greatly by nurturing the grassroots communities now collectively capable of generating unique, long-term understanding of Earth's most precious forests. Resumen: Los bosques tropicales son los ecosistemas más diversos y productivos del mundo y entender su funcionamiento es crítico para nuestro futuro colectivo. Sin embargo, hasta hace muy poco, los esfuerzos para medirlos y monitorearlos han estado muy desconectados. El trabajo en redes es esencial para descubrir las respuestas a preguntas que trascienden las fronteras y los plazos de las agencias de financiamiento. Aquí mostramos cómo una comunidad global está respondiendo a los desafíos de la investigación en ecosistemas tropicales a través de diversos equipos realizando mediciones árbol por árbol en miles de parcelas permanentes de largo plazo. Revisamos los descubrimientos más importantes de este trabajo y discutimos cómo este proceso está cambiando la ciencia relacionada a los bosques tropicales. El enfoque central de nuestro esfuerzo implica la conexión de iniciativas locales de largo plazo con protocolos estandarizados y manejo de datos para producir resultados que se puedan trasladar a múltiples escalas. Conectando investigadores tropicales, elevando su posición y estatus, nuestro modelo de Red Social de Investigación reconoce el rol fundamental que tienen, para el descubrimiento científico, quienes generan o producen los datos. Concebida en 1999 con RAINFOR (Suramérica), nuestras redes de parcelas permanentes han sido adaptadas en África (AfriTRON) y el sureste asiático (T-FORCES) y ampliamente replicadas en el mundo. Actualmente todas estas iniciativas están integradas a través de la ciber-infraestructura de ForestPlots.net, conectando colegas de 54 países en 24 redes diferentes de parcelas. Colectivamente, estas redes están transformando nuestro conocimiento sobre los bosques tropicales y el rol de éstos en la biósfera. Juntos hemos descubierto cómo, dónde y porqué el carbono y la biodiversidad de los bosques tropicales está respondiendo al cambio climático y cómo se retroalimentan. Esta colaboración pan-tropical de largo plazo ha expuesto un gran sumidero de carbono y sus tendencias, mostrando claramente cuáles son los factores más importantes, qué procesos se ven afectados, dónde ocurren los cambios, los tiempos de reacción y las probables respuestas futuras mientras el clima continúa cambiando. Apalancando lo que realmente es una tecnología antigua, las redes de parcelas están generando una verdadera y moderna revolución en la ciencia tropical. En el futuro, la humanidad puede beneficiarse enormemente si se nutren y cultivan comunidades de investigadores de base, actualmente con la capacidad de generar información única y de largo plazo para entender los que probablemente son los bosques más preciados de la tierra. Resumo: Florestas tropicais são os ecossistemas mais diversos e produtivos da Terra. Embora uma boa compreensão destas florestas seja crucial para o nosso futuro coletivo, até muito recentemente os esforços de medições e monitoramento foram amplamente desconexos. É essencial formarmos redes para obtermos respostas que transcendem fronteiras e horizontes de agências financiadoras. Neste estudo nós mostramos como uma comunidade global está respondendo aos desafios da pesquisa de ecossistemas tropicais, com equipes diversas medindo florestas, árvore por árvore, em milhares de parcelas monitoradas à longo prazo. Nós revisamos as maiores descobertas científicas deste trabalho, e mostramos também como este processo está mudando a ciência de florestas tropicais. Nossa abordagem principal envolve unir iniciativas de base a protocolos padronizados e gerenciamento de dados a fim de gerar resultados robustos em escalas ampliadas. Ao conectar pesquisadores tropicais e elevar seus status, nosso modelo de Rede de Pesquisa Social reconhece o papel-chave do produtor dos dados na descoberta científica. Concebida em 1999 com o RAINFOR (América do Sul), nossa rede de parcelas permanentes foi adaptada para África (AfriTRON) e Sudeste asiático (T-FORCES), e tem sido extensamente reproduzida em todo o mundo. Agora estas múltiplas iniciativas estão integradas através de uma infraestrutura cibernética do ForestPlots.net, conectando colegas de 54 países de 24 redes de parcelas. Estas iniciativas estão transformando coletivamente o entendimento das florestas tropicais e seus papéis na biosfera. Juntos nós descobrimos como, onde e por que o carbono e a biodiversidade da floresta estão respondendo às mudanças climáticas, e seus efeitos de retroalimentação. Esta duradoura colaboração pantropical revelou um grande sumidouro de carbono persistente e suas tendências, assim como tem evidenciado quais direcionadores são mais importantes, quais processos florestais são mais afetados, onde eles estão mudando, seus atrasos no tempo de resposta, e as prováveis respostas das florestas tropicais conforme o clima continua a mudar. Dessa forma, aproveitando uma notável tecnologia antiga, redes de parcelas acendem faíscas de uma moderna revolução na ciência das florestas tropicais. No futuro a humanidade pode se beneficiar incentivando estas comunidades basais que agora são coletivamente capazes de gerar conhecimentos únicos e duradouros sobre as florestas mais preciosas da Terra. Résume: Les forêts tropicales sont les écosystèmes les plus diversifiés et les plus productifs de la planète. Si une meilleure compréhension de ces forêts est essentielle pour notre avenir collectif, jusqu'à tout récemment, les efforts déployés pour les mesurer et les surveiller ont été largement déconnectés. La mise en réseau est essentielle pour découvrir les réponses à des questions qui dépassent les frontières et les horizons des organismes de financement. Nous montrons ici comment une communauté mondiale relève les défis de la recherche sur les écosystèmes tropicaux avec diverses équipes qui mesurent les forêts arbre après arbre dans de milliers de parcelles permanentes. Nous passons en revue les principales découvertes scientifiques de ces travaux et montrons comment ce processus modifie la science des forêts tropicales. Notre approche principale consiste à relier les initiatives de base à long terme à des protocoles standardisés et une gestion de données afin de générer des résultats solides à grande échelle. En reliant les chercheurs tropicaux et en élevant leur statut, notre modèle de réseau de recherche sociale reconnaît le rôle clé de l'auteur des données dans la découverte scientifique. Conçus en 1999 avec RAINFOR (Amérique du Sud), nos réseaux de parcelles permanentes ont été adaptés à l'Afrique (AfriTRON) et à l'Asie du Sud-Est (T-FORCES) et largement imités dans le monde entier. Ces multiples initiatives sont désormais intégrées via l'infrastructure ForestPlots.net, qui relie des collègues de 54 pays à travers 24 réseaux de parcelles. Ensemble, elles transforment la compréhension des forêts tropicales et de leur rôle biosphérique. Ensemble, nous avons découvert comment, où et pourquoi le carbone forestier et la biodiversité réagissent au changement climatique, et comment ils y réagissent. Cette collaboration pan-tropicale à long terme a révélé un important puits de carbone à long terme et ses tendances, tout en mettant en évidence les facteurs les plus importants, les processus forestiers qui sont affectés, les endroits où ils changent, les décalages et les réactions futures probables des forêts tropicales à mesure que le climat continue de changer. En tirant parti d'une technologie remarquablement ancienne, les réseaux de parcelles déclenchent une révolution très moderne dans la science des forêts tropicales. À l'avenir, l'humanité pourra grandement bénéficier du soutien des communautés de base qui sont maintenant collectivement capables de générer une compréhension unique et à long terme des forêts les plus précieuses de la Terre. Abstrak: Hutan tropika adalah di antara ekosistem yang paling produktif dan mempunyai kepelbagaian biodiversiti yang tinggi di seluruh dunia. Walaupun pemahaman mengenai hutan tropika amat penting untuk masa depan kita, usaha-usaha untuk mengkaji dan mengawas hutah-hutan tersebut baru sekarang menjadi lebih diperhubungkan. Perangkaian adalah sangat penting untuk mencari jawapan kepada soalan-soalan yang menjangkaui sempadan dan batasan agensi pendanaan. Di sini kami menunjukkan bagaimana sebuah komuniti global bertindak balas terhadap cabaran penyelidikan ekosistem tropika melalui penglibatan pelbagai kumpulan yang mengukur hutan secara pokok demi pokok dalam beribu-ribu plot jangka panjang. Kami meninjau semula penemuan saintifik utama daripada kerja ini dan menunjukkan bagaimana proses ini sedang mengubah bidang sains hutan tropika. Teras pendekatan kami memberi tumpuan terhadap penghubungan inisiatif akar umbi jangka panjang dengan protokol standar serta pengurusan data untuk mendapatkan hasil skala besar yang kukuh. Dengan menghubungkan penyelidik-penyelidik tropika dan meningkatkan status mereka, model Rangkaian Penyelidikan Sosial kami mengiktiraf kepentingan peranan pengasas data dalam penemuan saintifik. Bermula dengan pengasasan RAINFOR (Amerika Selatan) pada tahun 1999, rangkaian-rangkaian plot kekal kami kemudian disesuaikan untuk Afrika (AfriTRON) dan Asia Tenggara (T-FORCES) dan selanjutnya telah banyak dicontohi di seluruh dunia. Kini, inisiatif-inisiatif tersebut disepadukan melalui infrastruktur siber ForestPlots.net yang menghubungkan rakan sekerja dari 54 negara di 24 buah rangkaian plot. Secara kolektif, rangkaian ini sedang mengubah pemahaman tentang hutan tropika dan peranannya dalam biosfera. Kami telah bekerjasama untuk menemukan bagaimana, di mana dan mengapa karbon serta biodiversiti hutan bertindak balas terhadap perubahan iklim dan juga bagaimana mereka saling bermaklum balas. Kolaborasi pan-tropika jangka panjang ini telah mendedahkan sebuah sinki karbon jangka panjang serta arah alirannya dan juga menjelaskan pemandu-pemandu perubahan yang terpenting, di mana dan bagaimana proses hutan terjejas, masa susul yang ada dan kemungkinan tindakbalas hutan tropika pada perubahan iklim secara berterusan di masa depan. Dengan memanfaatkan pendekatan lama, rangkaian plot sedang menyalakan revolusi yang amat moden dalam sains hutan tropika. Pada masa akan datang, manusia sejagat akan banyak mendapat manfaat jika memupuk komuniti-komuniti akar umbi yang kini berkemampuan secara kolektif menghasilkan pemahaman unik dan jangka panjang mengenai hutan-hutan yang paling berharga di dunia. Instituto de Ecología Regional (IER) Universidad Nacional de Tucumán (UNT) Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET) Facultad de Ciencias Agrarias Universidad Nacional de Jujuy James Cook University (JCU) CSIRO (Commonwealth Scientific and Industrial Research Organisation) School of Land & Food University of Tasmania CSIRO Tropical Forest Research Centre Independent Researcher Environmental Protection Agency (EPA) Centre for Tropical Environmental and Sustainability Science (TESS) College of Marine and Environmental Sciences James Cook University Centre for Tropical Environmental and Sustainability Science College of Science and Engineering James Cook University University of the Sunshine Coast University of York Flamingo Land Ltd. 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Mensuration Unit Forestry Commission of Ghana Center for International Forestry Research Iwokrama International Centre for Rainforest Conservation and Development Guyana Forestry Commission Utrecht University Centre for Sustainable Technologies Indian Institute of Science Centre for International Forestry Research (CIFOR) Herbarium Borgoriense Indonesian Institute of Sciences (LIPI) Indonesian Institute of Science Forest Research and Development Agency (FORDA) Balitek-KSDA Samboja University of Florence and MUSE - Museo delle Scienze Cirad Hokkaido University Graduate School of Agriculture Kyoto University Forestry Development Authority of the Government of Liberia (FDA) University of Liberia Sungai Wain Protection Forest South East Asia Rainforest Research Partnership Danum Valley Field Centre Malaysian Palm Oil Board Sabah Forestry Department Forest Research Centre Universiti Malaysia Sabah Sabah Forestry Department Sarawak Forestry Corporation Eduardo Mondlane University Herbarium UNAN-Leon Universidad Nacional Autónoma de Nicaragua University of Abeokuta Natural History Museum of Norway University of Oslo Norwegian University of Life Sciences Universidad Nacional de la Amazonía Peruana (UNAP) Universidad Nacional de Jaén Jardin Botanico de Missouri Andes to Amazon Biodiversity Program Universidad Nacional de San Agustín de Arequipa Facultad de Ciencias Biológicas Universidad Nacional de la Amazonía Peruana Kené - Instituto de Estudios Forestales y Ambientales Instituto de Investigaciones de la Amazonia Peruana (IIAP) Universidad Nacional Jorge Basadre de Grohmann (UNJBG) Universidad Nacional de San Antonio Abad del Cusco Centro de Conservación Investigación y Manejo CIMA Pontificia Universidad Católica del Perú Asociacion Bosques Perú Université Officielle de Bukavu Université Marien N'Gouabi Wildlife Conservation Society Ecole Nationale Supérieure d'Agronomie et de Foresterie Université Marien Ngouabi Univeriste Marien Ngouabi The Gola Rainforest National Park Department of Geography National University of Singapore Departamento de Biología y Geología Física y Química inorgánica Universidad Rey Juan Carlos Real Jardín Botánico – CSIC Departamento de Biología Área de Botánica Universidad Autónoma de Madrid Museo Nacional de Ciencias Naturales (MNCN-CSIC) Centre for Agricultural Research in Suriname (CELOS) Stockholm Environment Institute Department of Plant Ecology and Evolution Uppsala University Southern Swedish Forest Research Centre InfoFlora Conservatoire et Jardin Botanique Geneve National Chung Hsing University Sokoine University of Agriculture Naturalis Biodiversity Center Wageningen University Forest Ecology and Forest Management Group Tropenbos International Institute for Biodiversity and Ecosystem Dynamics University of Amsterdam Bureau Waardenburg BV Van Hall Larenstein University of Applied Sciences Van der Hout Forestry Consulting Utrecht University, Domplein 29 Wageningen University Plant Ecology and Nature Conservation Group Data for Sustainability Department of Zoology Entomology & Fisheries Sciences Makerere University The Institute of Tropical Forest Conservation (ITFC) Mbarara University of Science and Technology (MUST) George Washington University Makerere University Department of Forestry Biodiversity and Tourism Makerere University University of Stirling University of Kent School of Geography University of Leeds UK Centre of Ecology & Hydrology Lancaster University University of Oxford The Landscapes and Livelihoods Group (TLLG) Overseas Development Institute Manchester Metropolitan University University of Aberdeen University of Exeter School of GeoSciences University of Edinburgh University of Cambridge Department of Environment and Geography University of York Department of Geography University College London Imperial College School of Geography Earth & Environmental Sciences Birmingham Institute of Forest Research University of Birmingham University of Plymouth Geography College of Life and Environmental Sciences University of Exeter Lancaster Environment Centre Lancaster University University of Edinburgh School of Biology University of Leeds Royal Botanic Garden Edinburgh CENAREST & ANPN & Stirling University University of Bristol School of Biological Sciences Department of Plant Sciences University of Cambridge Living with Lake Centre Laurentian University Royal Botanic Gardens Kew The Royal Society for the Protection of Birds centre for Conservation Science Environmental Change Institute School of Geography and the Environment University of Oxford UK Centre for Ecology & Hydrology School of Geography and the Environment University of Oxford The Royal Botanic Gardens Department of Geography and Environmental Science University of Dundee School of Biological Sciences University of Southampton University of East Anglia Stirling University School of Earth and Environment University of Leeds Department of Plant & Soil Science School of Biological Sciences University of Aberdeen, Cruickshank Building Institute for Transport Studies University of Leeds UK Research & Innovation University of Nottingham University of Bangor Center for Tropical Research Institute of the Environment and Sustainability University of California Center for Tropical Conservation Nicholas School of the Environment Duke University Ecology and Evolutionary Biology University of Michigan Saint Louis Zoo Department of Organismic and Evolutionary Biology Harvard University Center for Global Discovery and Conservation Science Arizona State University Wildlife Conservation Society – Programme Congo Woods Hole Research Center The University of Michigan Herbarium Nicholas School of the Environment National Park Service University of California ForestGEO Smithsonian Tropical Research Institute University of Texas at Austin Smithsonian Institute Washington University in Saint Louis Center for Conservation and Sustainable Development at the Missouri Botanical Garden Smithsonian Tropical Research Institute Smithsonian Institution Forest Global Earth Observatory (ForestGEO) Forest Global Earth Observatory (ForestGEO) Smithsonian Tropical Research Institute George Mason University Missouri Botanical Garden Broward County Parks and Recreation Nova Southeastern University Science and Education The Field Museum Department of Biology Boston University Wake Forest University Department of Geographical Sciences University of Maryland San Diego Zoo Institute for Conservation Research Biology Department Washington State University Yale School of Forestry & Environmental Studies Columbia University Department of Environmental Science Policy and Management University of California Berkeley School of Earth Sciences and Environmental Sustainability Northern Arizona University Department of Geography and the Environment University of Texas at Austin UNELLEZ-Guanare Programa de Ciencias del Agro y el Mar Herbario Universitario (PORT) Ci Progress GreenLife Universidad Nacional Experimental de Guayana Instituto Venezolano de Investigaciones Científicas (IVIC) Universidad de los Andes Viet Nature Conservation Centre CIRAD School of Life Sciences University of Lincoln UNESP - São Paulo State University Instituto de Biociências Universidade Estadual Paulista Gordon and Betty Moore Foundation: 1656 FAPESP: 2012/51509-8 FAPESP: 2012/51872-5 Fundação de Amparo à Pesquisa do Estado de Goiás: 2017/10267000329 European Research Council: 291585 Gordon and Betty Moore Foundation: 5349 European Research Council: 758873 Belgian Federal Science Policy Office: BR/132/A1/AFRIFORD Belgian Federal Science Policy Office: BR/143/A3/HERBAXYLAREDD Vlaamse Interuniversitaire Raad: CD2018TEA459A103 CNPq: CNPq/PPBio/457602/2012-0 National Science Foundation: DEB 1754647 Natural Environment Research Council: E/M0022021/1 Royal Society: ICA/R1/180100 Natural Environment Research Council: NE/D005590/1 European Research Council: NE/F005806/1 Natural Environment Research Council: NE/F005806/1 FAPESP: NE/K016431/1 Natural Environment Research Council: NE/N004655/1 FAPESP: NE/N012542/1 Royal Society: NE/P008755/1 FAPESP: NE/S011811/1 National Geographic Society: NE/T01279X/1 CNPq: PELD/441244/2016-5 Belgian Federal Science Policy Office: SD/AR/01A/COBIMFO

Made available in DSpace on 2022-04-28T19:28:40Z (GMT). No. of bitstreams: 0 Previous issue date: 2020-12-01 Huanglongbing (HLB) is a severe disease of citrus caused by the bacterium Candidatus Liberibacter. In America, the most common species is Candidatus Liberibacter asiaticus (CLas). In a previous study of the Citrus-HLB pathosystem, our group found differences in CLas multiplication in a population of hybrids obtained by hybridization between Citrus sunki Hort. Ex Tan. and Poncirus trifoliata (L.) Raf. cv. Rubidoux. The bacterial concentration was higher in C. sunki than in P. trifoliata. Thus, this study aims to map phenotypic (QTL) and gene expression (eQTL) data associated with host response to CLas in the linkage groups (LGs) of the previously constructed parental maps of C. sunki and P. trifoliata cv. Rubidoux. For the phenotypic analysis, we used a population of 79 F1 hybrids (termed citrandarins) between C. sunki and P. trifoliata. CLas and starch were quantified in the leaves of the plants two years after pathogen inoculation, allowing the classification of hybrids as resistant, tolerant, and susceptible. The expression of 14 candidate genes was measured in 72 hybrids of the population and used as expression data for the eQTL mapping. We located nine QTL and 52 eQTL in the C. sunki map and 17 QTL and 40 eQTL in the P. trifoliata map. The overlap of eQTL of the majority of genes with QTL from the phenotypic data indicates that the genes are related to the phenotype and are probably related to pathogen infection. Centro APTA Citros Sylvio Moreira Instituto Agronômico de Campinas Laboratório de Bioinformática Centro de Ciências Biológicas Universidade Federal de Santa Catarina Universidade Estadual de Campinas Hill Laboratories Departamento de Genética Instituto de Biociências Universidade do Estado de São Paulo Centro de Ciências Agrárias Universidade Federal de São Carlos

Glyphosate is the main tool for weed management in Brazilian citrus orchards, where weeds, such as Conyza bonariensis and Digitaria insularis, have been found with resistance to this herbicide. Field prospections have allowed the identification of a possible new case of glyphosate resistance. In this work, the susceptibility levels to glyphosate on three Amaranthus viridis L. populations, with suspected resistance (R1, R2, and R-IAC), collected in citrus orchards from the S&atilde, o Paulo State, Brazil, as well as their accumulation rates of shikimic acid, were determined. The fresh weight of the susceptible population (S) was reduced by 50% (GR50) with ~30 g ea ha&minus, 1 glyphosate, while the GR50 values of the R populations were between 5.4 and 11.3 times higher than that for S population. The LD50 (herbicide dose to kill 50% of individuals of a weed population) values of the S population were &le, 150 g ea ha&minus, 1 glyphosate, while the LD50 of the R populations ranged from 600 to 920 g ea ha&minus, 1. Based on the reduction of fresh weight and the survival rate, the R1 population showed the highest level of glyphosate resistance, which had GR50 and LD50 values of 248 and 918 g ea ha&minus, 1 glyphosate, respectively. The S population accumulated 240 &micro, g shikimic acid at 1000 &micro, M glyphosate, while the R1, R2, and R-IAC populations accumulated only 16, 43, and 33 &micro, g shikimic acid, respectively (between 5.6 to 15 times less than the S population). Enzyme activity assays suggested that at least one target site-type mechanism was involved in resistance. This result revealed the first report of glyphosate resistance in A. viridis reported in the world.

To test the hypothesis that the plant stress related elicitor cis-jasmone (cJ) provides protection in soybean pods against the seed-sucking stink bug pest, Euschistus heros, the growth of E. heros on cJ-treated pods was investigated using three soybean cultivars differing in insect susceptibility, i.e. BRS 134 (susceptible), IAC 100 (resistant) and Dowling (resistant). E. heros showed reduced weight gain when fed cJ-treated Dowling, whereas no effect on weight gain was observed when fed other treated cultivars. Using analysis of variance, a three factor (cultivar x treatment x time) interaction was observed with concentrations of the flavonoid glycosides daidzin and genistin, and their corresponding aglycones, daidzein and genistein. There were increases in genistein and genistin concentrations in cJ-treated Dowling at 144 and 120 h post treatment, respectively. Higher concentrations of malonyldaidzin and malonylgenistin in Dowling, compared to BRS 134 and IAC 100, were observed independently of time, the highest concentrations being observed in cJ-treated seeds. Levels of glycitin and malonylglycitin were higher in BRS 134 and IAC 100 compared to Dowling. Canonical variate analysis indicated daidzein (in the first two canonical variates) and genistein (in the first only) as important discriminatory variables. These results suggest that cJ treatment leads to an increase in the levels of potentially defensive isoflavonoids in immature soybean seeds, but the negative effect upon E. heros performance is cultivar-dependent., Graphical abstract cis-Jasmone treatment of soybean pods changes flavonoid levels and negatively affects Euschistus heros growth in a cultivar dependent manner.Image 1, Highlights • cis-Jasmone (cJ) affects levels of defence flavonoids in immature seeds of soybean, Glycine max. • The weight gain of the seed sucking stink bug pest, Euschistus heros, is reduced when fed on cJ-treated cv. Dowling only. • The negative effect of cJ treatment upon E. heros performance is cultivar dependent.

International audience; Sugarcane (Saccharum spp.) is highly polyploid and aneuploid. Modern cultivars are derived from hybridization between S. officinarum and S. spontaneum. This combination results in a genome exhibiting variable ploidy among different loci, a huge genome size (similar to 10 Gb) and a high content of repetitive regions. An approach using genomic, transcriptomic, and genetic mapping can improve our knowledge of the behavior of genetics in sugarcane. The hypothetical HP600 and Centromere Protein C (CENP-C) genes from sugarcane were used to elucidate the allelic expression and genomic and genetic behaviors of this complex polyploid. The physically linked side-by-side genes HP600 and CENP-C were found in two different homeologous chromosome groups with ploidies of eight and ten. The first region (Region01) was a Sorghum bicolor ortholog region with all haplotypes of HP600 and CENP-C expressed, but HP600 exhibited an unbalanced haplotype expression. The second region (Region02) was a scrambled sugarcane sequence formed from different noncollinear genes containing partial duplications of HP600 and CENP-C (paralogs). This duplication resulted in a non-expressed HP600 pseudogene and a recombined fusion version of CENP-C and the orthologous gene Sobic. 003G299500 with at least two chimeric gene haplotypes expressed. It was also determined that it occurred before Saccharum genus formation and after the separation of sorghum and sugarcane. A linkage map was constructed using markers from nonduplicated Region01 and for the duplication (Region01 and Region02). We compare the physical and linkage maps, demonstrating the possibility of mapping markers located in duplicated regions with markers in nonduplicated region. Our results contribute directly to the improvement of linkage mapping in complex polyploids and improve the integration of physical and genetic data for sugarcane breeding programs. Thus, we describe the complexity involved in sugarcane genetics and genomics and allelic dynamics, which can be useful for understanding complex polyploid genomes.

Made available in DSpace on 2018-12-11T16:52:34Z (GMT). No. of bitstreams: 0 Previous issue date: 2018-08-01 Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) The objective of this work was to evaluate the genetic parameters and estimate genetic gains in two populations of Hevea brasiliensis. The first population of the study is originated from the primary forest of Rio Branco – Acre (wild population – PS), and the other population is originated from clonal matrices (improved population – PM). Thirty-seven progenies were evaluated at 23 years for PS. For PM, 31 progenies at eight years of age were evaluated for growth traits and dry rubber yield. Estimates of the genetic parameters were made using the univariate linear mixed-model additive model REML/BLUP and gains in selection by the Multi-Effects Index (MEI) method. The selection strategies of 50%, 40% and 22% of individuals for the character of dry rubber yield (PBS) and stem perimeter (PAP) using the multi-effects index revealed high and low selection gains in both populations. For MP, the strategy of selection between and within progenies was more appropriate and for PS, the individual selection. The gains obtained in the selection were 54% for the PBS character in the improved population of 0.46% for the PAP character for the wild population. Universidade do Estado de Mato Grasso/UNEMAT, CP 08, Rua Prof. Dr. Renato Figueiro Varella Faculdade de Filosofia Ciências e Letras de Ribeirão Preto/USP Faculdade de Engenharia de Ilha Solteira/UNESP Instituto Agronômico de Campinas/IAC Faculdade de Engenharia de Ilha Solteira/UNESP

The primary focus of tropical forest restoration has been the recovery of forest structure and tree taxonomic diversity, with limited attention given to genetic conservation. Populations reintroduced through restoration plantings may have low genetic diversity and be genetically structured due to founder effects and genetic drift, which limit the potential of restoration to recover ecologically resilient plant communities. Here, we studied the genetic diversity, genetic structure and differentiation using single nucleotide polymorphisms (SNP) markers between restored and natural populations of the native tree Casearia sylvestris in the Atlantic Forest of Brazil. We sampled leaves from approximately 24 adult individuals in each of the study sites: two restoration plantations (27 and 62 years old) and two forest remnants. We prepared and sequenced a genotyping-by-sequencing library, SNP markers were identified de novo using Stacks pipeline, and genetic parameters and structure analyses were then estimated for populations. The sequencing step was successful for 80 sampled individuals. Neutral genetic diversity was similar among restored and natural populations (AR = 1.72 ± 0.005; HO = 0.135 ± 0.005; HE = 0.167 ± 0.005; FIS = 0.16 ± 0.022), which were not genetically structured by population subdivision. In spite of this absence of genetic structure by population we found genetic structure within populations but even so there is not spatial genetic structure in any population studied. Less than 1% of the neutral alleles were exclusive to a population. In general, contrary to our expectations, restoration plantations were then effective for conserving tree genetic diversity in human-modified tropical landscapes. Furthermore, we demonstrate that genotyping-by-sequencing can be a useful tool in restoration genetics. Made available in DSpace on 2018-12-12T00:03:58Z (GMT). No. of bitstreams: 1 GenomicDiversity.pdf: 1696141 bytes, checksum: d76d48e836129aae93b94e28ce94de2d (MD5) Previous issue date: 2018-12-11

Made available in DSpace on 2018-12-11T16:47:00Z (GMT). No. of bitstreams: 0 Previous issue date: 2017-04-24 Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) Citrus sudden death (CSD) has caused the death of approximately four million orange trees in a very important citrus region in Brazil. Although its etiology is still not completely clear, symptoms and distribution of affected plants indicate a viral disease. In a search for viruses associated with CSD, we have performed a comparative high-throughput sequencing analysis of the transcriptome and small RNAs from CSD-symptomatic and -asymptomatic plants using the Illumina platform. The data revealed mixed infections that included Citrus tristeza virus (CTV) as the most predominant virus, followed by the Citrus sudden death-associated virus (CSDaV), Citrus endogenous pararetrovirus (CitPRV) and two putative novel viruses tentatively named Citrus jingmen-like virus (CJLV), and Citrus virga-like virus (CVLV). The deep sequencing analyses were sensitive enough to differentiate two genotypes of both viruses previously associated with CSD-affected plants: CTV and CSDaV. Our data also showed a putative association of the CSD-symptomatic plants with a specific CSDaV genotype and a likely association with CitPRV as well, whereas the two putative novel viruses showed to be more associated with CSD-asymptomatic plants. This is the first high-throughput sequencing-based study of the viral sequences present in CSD-affected citrus plants, and generated valuable information for further CSD studies. Instituto de Biociências da Universidade Estadual Paulista (Unesp) Centro de Citricultura Sylvio Moreira Instituto Agronômico de Campinas Department of Plant Pathology University of California Institute for Sustainable Plant Protection (IPSP) CNR Instituto de Biociências da Universidade Estadual Paulista (Unesp)

Made available in DSpace on 2019-10-04T11:57:27Z (GMT). No. of bitstreams: 0 Previous issue date: 2016-09-01 National Science Foundation (NSF) U.S. Department of Agriculture (USDA) National Science Foundation Graduate Research Fellowship Program A novel flavi-like virus tentatively named Diaphorina citri flavi-like virus (DcFLV) was identified in field populations of Diaphorina citri through small RNA and transcriptome sequencing followed by reverse transcription (RT)-PCR. We report here the complete nucleotide sequence and genome organization of DcFLV, the largest flavi-like virus identified to date. Univ Calif Davis, Dept Plant Pathol, Davis, CA 95616 USA Univ Estadual Paulista, Inst Biociencias Botucatu, Botucatu, SP, Brazil Ctr APTA Citros Sylvio Moreira, Inst Agron Campinas, Lab Biotecnol, Cordeiropolis, SP, Brazil CNR, Inst Sustainable Plant Protect IPSP, Turin, Italy Univ Estadual Paulista, Inst Biociencias Botucatu, Botucatu, SP, Brazil National Science Foundation (NSF): 1148897 U.S. Department of Agriculture (USDA): 13-002NU-781 U.S. Department of Agriculture (USDA): 2015-70016-23011 National Science Foundation Graduate Research Fellowship Program: 1148897

The taxonomy of the genus Manihot is still uncertain and the genetic origin of cassava (M. esculenta Crantz) continues to be controversial. We studied the degree of genetic relatedness between cassava and two naturally occurring species (M. flabellifolia and M. peruviana) which are probably involved in the evolution of cassava, using RAPD and AFLP molecular markers. Thirty-three clonal accessions of cassava of known genetic diversity and 15 accessions of the wild species M. flabellifolia and M. peruviana were analyzed using 92 polymorphic RAPD bands and 73 polymorphic AFLP bands. The genetic markers were unable to differentiate the two wild species, which confirms their botanical similarity. Half of the total number of amplified bands were monomorphic in all of the genotypes evaluated. The mean genetic similarity (Jaccard) between cassava and the species M. flabellifolia/M. peruviana was 0.59. A grouping analysis (neighbor-joining method) with RAPD markers of cultivated cassava, M. flabellifolia/M. peruviana and the other wild species located the genotypes of cassava and M. flabellifolia/M. peruviana at one extremity and the three Mexican species (M. aesculifolia, M. michaelis and M. chlorostica) at the other. An intermediate position between these groups was occupied by two wild species (M. glaziovii and M. reptans) native to central and northeastern Brazil. These results are consistent with the hypothesis that the species M. flabellifolia and M. peruviana gave rise to the cultivated species.A taxonomia do gênero Manihot em grande parte não está resolvida e a origem genética da mandioca (M. esculenta Crantz) continua controvertida. Na tentativa de contribuir para elucidar sua história evolutiva, as relações de proximidade genética da mandioca com duas espécies selvagens que provavelmente participaram da sua história evolutiva, M. flabellifolia e M. peruviana, foram estudadas através de dois tipos de marcadores moleculares, os RAPDs e os AFLPs. Para tanto, foram empregados 33 acessos clonais de mandioca de reconhecida diversidade genética e 15 acessos das espécies selvagens M. flabellifolia e M. peruviana das regiões central e norte do Brasil, importantes centros de ocorrência natural destas espécies. Noventa e duas bandas polimórficas RAPD e 73 AFLP foram utilizadas para análise dos resultados. Ambos marcadores foram incapazes de diferenciar as duas espécies selvagens utilizadas, confirmando a grande semelhança botânica entre elas. Em relação à mandioca cultivada, os resultados revelaram grande proximidade genética entre estas e as espécies selvagens. Metade do total de bandas amplificadas apresentaram-se monomórficas entre todos os genótipos avaliados. O valor médio de similaridade genética (Jaccard) entre a mandioca e as espécies M. flabellifolia/M. peruviana é de 0.59. As relações de proximidade genética entre a mandioca e M. flabellifolia/M. peruviana foram confirmadas quando outras cinco espécies selvagens foram também incorporadas em relação ao polimorfismo gerado pelos RAPDs. A análise de agrupamento (neighbor-joining) realizada com genótipos de mandioca, de M. flabellifolia/M. peruviana e das demais espécies selvagens reuniu numa extremidade os genótipos de mandioca e M. flabellifolia/M. peruviana e na outra extremidade três espécies mexicanas (M. aesculifolia, M. michaelis e M. chlorostica). Entre estes dois grupos se posicionaram outras duas espécies selvagens cuja ocorrência natural é na região central e no nordeste brasileiro (M. glaziovii e M. reptans). Embora não conclusivos, os resultados apresentados são coerentes com a hipótese de que as espécies M. flabellifolia e M. peruviana poderiam ter originado a espécie cultivada. No entanto, outras espécies pouco estudadas (M. procumbens, M. fruticulosa, M. pentaphylla e M. pruinosa) foram recentemente citadas como geneticamente muito próximas da mandioca. Assim, um estudo abordando maior número de espécies e com marcadores mais apropriados, a exemplo dos microsatélites, merece ser feito.