المؤلفون: Stein, Joshua C., Yu, Yeisoo, Copetti, Dario, Zwickl, Derrick J., Zhang, Li, Zhang, Chengjun, Chougule, Kapeel, Gao, Dongying, Iwata, Aiko, Goicoechea, Jose Luis, Wei, Sharon, Wang, Jun, Liao, Yi, Wang, Muhua, Jacquemin, Julie, Becker, Claude, Kudrna, Dave, Zhang, Jianwei, Londono, Carlos E. M., Song, Xiang, Lee, Seunghee, Sanchez, Paul, Zuccolo, Andrea, Ammiraju, Jetty S. S., Talag, Jayson, Danowitz, Ann, Rivera, Luis F., Gschwend, Andrea R., Noutsos, Christos, Wu, Cheng-chieh, Kao, Shu-min, Zeng, Jhih-wun, Wei, Fu-jin, Zhao, Qiang, Feng, Qi, El Baidouri, Moaine, Carpentier, Marie-Christine, Lasserre, Eric, Cooke, Richard, da Rosa Farias, Daniel, da Maia, Luciano Carlos, dos Santos, Railson S., Nyberg, Kevin G., McNally, Kenneth L., Mauleon, Ramil, Alexandrov, Nickolai, Schmutz, Jeremy, Flowers, Dave, Fan, Chuanzhu, Weigel, Detlef

المصدر: Nature Genetics ; volume 50, issue 11, page 1618-1618 ; ISSN 1061-4036 1546-1718

مصطلحات موضوعية: Genetics

الإتاحة: https://doi.org/10.1038/s41588-018-0261-2Test
http://www.nature.com/articles/s41588-018-0261-2Test
http://www.nature.com/articles/s41588-018-0261-2.pdfTest

المؤلفون: Stein, Joshua C., Yu, Yeisoo, Copetti, Dario, Zwickl, Derrick J., Zhang, Li, Zhang, Chengjun, Chougule, Kapeel, Gao, Dongying, Iwata, Aiko, Goicoechea, Jose Luis, Wei, Sharon, Wang, Jun, Liao, Yi, Wang, Muhua, Jacquemin, Julie, Becker, Claude, Kudrna, Dave, Zhang, Jianwei, Londono, Carlos E. M., Song, Xiang, Lee, Seunghee, Sanchez, Paul, Zuccolo, Andrea, Ammiraju, Jetty S. S., Talag, Jayson, Danowitz, Ann, Rivera, Luis F., Gschwend, Andrea R., Noutsos, Christos, Wu, Cheng-chieh, Kao, Shu-min, Zeng, Jhih-wun, Wei, Fu-jin, Zhao, Qiang, Feng, Qi, El Baidouri, Moaine, Carpentier, Marie-Christine, Lasserre, Eric, Cooke, Richard, Rosa Farias, Daniel da, da Maia, Luciano Carlos, dos Santos, Railson S., Nyberg, Kevin G., McNally, Kenneth L., Mauleon, Ramil, Alexandrov, Nickolai, Schmutz, Jeremy, Flowers, Dave, Fan, Chuanzhu, Weigel, Detlef

المصدر: Nature Genetics ; volume 50, issue 2, page 285-296 ; ISSN 1061-4036 1546-1718

مصطلحات موضوعية: Genetics

الإتاحة: https://doi.org/10.1038/s41588-018-0040-0Test
http://www.nature.com/articles/s41588-018-0040-0Test
http://www.nature.com/articles/s41588-018-0040-0.pdfTest

المؤلفون: Camp, Rik Op den, Streng, Arend, De Mita, Stéphane, Cao, Qingqin, Polone, Elisa, Liu, Wei, Ammiraju, Jetty S. S., Kudrna, Dave, Wing, Rod, Untergasser, Andreas, Bisseling, Ton, Geurts, René

المصدر: Science, 2011 Feb . 331(6019), 909-912.

الوصول الحر: http://dx.doi.org/10.1126/science.1198181Test

المؤلفون: Lu, Fei, Ammiraju, Jetty S. S., Sanyal, Abhijit, Zhang, Shengli, Song, Rentao, Chen, Jinfeng, Li, Guisheng, Sui, Yi, Song, Xiang, Cheng, Zhukuan, de Oliveira, Antonio Costa, Bennetzen, Jeffrey L., Jackson, Scott A., Wing, Rod A., Chen, Mingsheng

المصدر: Proceedings of the National Academy of Sciences of the United States of America, 2009 Feb 01. 106(6), 2071-2076.

الوصول الحر: https://www.jstor.org/stable/40421724Test

المؤلفون: Ammiraju, Jetty S. S., Lu, Fei, Sanyal, Abhijit, Yu, Yeisoo, Song, Xiang, Jiang, Ning, Pontaroli, Ana Clara, Rambo, Teri, Currie, Jennifer, Collura, Kristi, Talag, Jayson, Fan, Chuanzhu, Goicoechea, Jose Luis, Zuccolo, Andrea, Chen, Jinfeng, Bennetzen, Jeffrey L., Chen, Mingsheng, Jackson, Scott, Wing, Rod A.

المصدر: The Plant Cell, 2008 Dec 01. 20(12), 3191-3209.

الوصول الحر: https://www.jstor.org/stable/25474266Test

المؤلفون: Jablonska, Barbara, Ammiraju, Jetty S. S., Bhattarai, Kishor K., Mantelin, Sophie, de Ilarduya, Oscar Martinez, Roberts, Philip A., Kaloshian, Isgouhi

المصدر: Plant Physiology, 2007 Feb 01. 143(2), 1044-1054.

الوصول الحر: https://www.jstor.org/stable/40065453Test

المؤلفون: Wang, Muhua, Yu, Yeisoo, Haberer, Georg, Marri, Pradeep Reddy, Fan, Chuanzhu, Goicoechea, Jose Luis, Zuccolo, Andrea, Song, Xiang, Kudrna, Dave, Ammiraju, Jetty S S, Cossu, Rosa Maria, Maldonado, Carlos, Chen, Jinfeng, Lee, Seunghee, Sisneros, Nick, de Baynast, Kristi, Golser, Wolfgang, Wissotski, Marina, Kim, Woojin, Sanchez, Paul, Ndjiondjop, Marie-Noelle, Sanni, Kayode, Long, Manyuan, Carney, Judith, Panaud, Olivier, Wicker, Thomas, Machado, Carlos A, Chen, Mingsheng, Mayer, Klaus F X, Rounsley, Steve, Wing, Rod A

المصدر: Nature Genetics ; volume 46, issue 9, page 982-988 ; ISSN 1061-4036 1546-1718

مصطلحات موضوعية: Genetics

الإتاحة: https://doi.org/10.1038/ng.3044Test
https://www.nature.com/articles/ng.3044.pdfTest
https://www.nature.com/articles/ng.3044Test

المؤلفون: Paiva, Jorge A. P., Prat, Elisa, Vautrin, Sonia, S., Santos, Mauro D., San Clemente, Hélène, Brommonschenkel, Sergio, Fonseca, Paulo G. S., Grattapaglia, Dario, Song, Xiang, Ammiraju, Jetty S. S., Kudrna, David, Wing, Rod A., Freitas, Ana T., Berges, Helene, H., Grima Pettenati, Jacqueline

المساهمون: Ctr Florestas & Prod Florestais, Partenaires INRAE, Centre National de Ressources Génomiques Végétales (CNRGV), Institut National de la Recherche Agronomique (INRA), Instituto de Engenharia de Sistemas e Computadores (INESC), Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT), Universidade Federal de Viçosa = Federal University of Viçosa (UFV), EPqB Final W5 NOrte, University of Arizona, BIO5 Institute, Fundacao para a Ciencia e Tecnologia (Portugal) PTDC/AGR-GPL/66564/2006, Brazilian Ministry of Science and Technology ANR-06-ERAPG-10-03, 1755-01, CNPq 520489/02-0, ANR-06-ERAP-0006,BIOREGULATORS,Identification of molecular markers for the detection of bioregulators that enhance plant productivity and quality(2006)

المصدر: ISSN: 1471-2164 ; BMC Genomics ; https://hal.inrae.fr/hal-02645097Test ; BMC Genomics, 2011, 12, ⟨10.1186/1471-2164-12-137⟩.

مصطلحات موضوعية: ARTIFICIAL CHROMOSOME LIBRARY, CINNAMYL ALCOHOL-DEHYDROGENASE, MICROSATELLITE MARKERS, DOWN-REGULATION, NUCLEOTIDE-SEQUENCE, CHLOROPLAST GENOME, LENGTH VARIATION, WOOD FORMATION, TRANSPOSON ASSOCIATIONS, POPULUS-TRICHOCARPA, [SDV]Life Sciences [q-bio], [SDV.BV]Life Sciences [q-bio]/Vegetal Biology

الوصف: International audience ; Background: Eucalyptus species are among the most planted hardwoods in the world because of their rapid growth, adaptability and valuable wood properties. The development and integration of genomic resources into breeding practice will be increasingly important in the decades to come. Bacterial artificial chromosome (BAC) libraries are key genomic tools that enable positional cloning of important traits, synteny evaluation, and the development of genome framework physical maps for genetic linkage and genome sequencing. Results: We describe the construction and characterization of two deep-coverage BAC libraries EG_Ba and EG_Bb obtained from nuclear DNA fragments of E. grandis (clone BRASUZ1) digested with HindIII and BstYI, respectively. Genome coverages of 17 and 15 haploid genome equivalents were estimated for EG_Ba and EG_Bb, respectively. Both libraries contained large inserts, with average sizes ranging from 135 Kb (Eg_Bb) to 157 Kb (Eg_Ba), very low extra-nuclear genome contamination providing a probability of finding a single copy gene >= 99.99%. Libraries were screened for the presence of several genes of interest via hybridizations to high-density BAC filters followed by PCR validation. Five selected BAC clones were sequenced and assembled using the Roche GS FLX technology providing the whole sequence of the E. grandis chloroplast genome, and complete genomic sequences of important lignin biosynthesis genes. Conclusions: The two E. grandis BAC libraries described in this study represent an important milestone for the advancement of Eucalyptus genomics and forest tree research. These BAC resources have a highly redundant genome coverage (> 15x), contain large average inserts and have a very low percentage of clones with organellar DNA or empty vectors. These publicly available BAC libraries are thus suitable for a broad range of applications in genetic and genomic research in Eucalyptus and possibly in related species of Myrtaceae, including genome sequencing, gene ...

العلاقة: hal-02645097; https://hal.inrae.fr/hal-02645097Test; https://hal.inrae.fr/hal-02645097/documentTest; https://hal.inrae.fr/hal-02645097/file/2011_Paiva_BMC-Genomics_1.pdfTest; PRODINRA: 206546; WOS: 000288540400001

الإتاحة: https://doi.org/10.1186/1471-2164-12-137Test
https://hal.inrae.fr/hal-02645097Test
https://hal.inrae.fr/hal-02645097/documentTest
https://hal.inrae.fr/hal-02645097/file/2011_Paiva_BMC-Genomics_1.pdfTest

المؤلفون: Song, Xiang, Goicoechea, Jose Luis, Ammiraju, Jetty S S, Luo, Meizhong, He, Ruifeng, Lin, Jinke, Lee, So-Jeong, Sisneros, Nicholas, Watts, Tom, Kudrna, David A, Golser, Wolfgang, Ashley, Elizabeth, Collura, Kristi, Braidotti, Michele, Yu, Yeisoo, Matzkin, Luciano M, McAllister, Bryant F, Markow, Therese Ann, Wing, Rod A

المصدر: Genetics ; volume 187, issue 4, page 1023-1030 ; ISSN 1943-2631

مصطلحات موضوعية: Genetics

الوصف: The genus Drosophila has been the subject of intense comparative phylogenomics characterization to provide insights into genome evolution under diverse biological and ecological contexts and to functionally annotate the Drosophila melanogaster genome, a model system for animal and insect genetics. Recent sequencing of 11 additional Drosophila species from various divergence points of the genus is a first step in this direction. However, to fully reap the benefits of this resource, the Drosophila community is faced with two critical needs: i.e., the expansion of genomic resources from a much broader range of phylogenetic diversity and the development of additional resources to aid in finishing the existing draft genomes. To address these needs, we report the first synthesis of a comprehensive set of bacterial artificial chromosome (BAC) resources for 19 Drosophila species from all three subgenera. Ten libraries were derived from the exact source used to generate 10 of the 12 draft genomes, while the rest were generated from a strategically selected set of species on the basis of salient ecological and life history features and their phylogenetic positions. The majority of the new species have at least one sequenced reference genome for immediate comparative benefit. This 19-BAC library set was rigorously characterized and shown to have large insert sizes (125–168 kb), low nonrecombinant clone content (0.3–5.3%), and deep coverage (9.1–42.9×). Further, we demonstrated the utility of this BAC resource for generating physical maps of targeted loci, refining draft sequence assemblies and identifying potential genomic rearrangements across the phylogeny.

الإتاحة: https://doi.org/10.1534/genetics.111.126540Test
https://academic.oup.com/genetics/article-pdf/187/4/1023/46854203/genetics1023.pdfTest

المؤلفون: Febrer, Melanie, Goicoechea, Jose Luis, Wright, Jonathan, McKenzie, Neil, Song, Xinag, Lin, Jinke, Collura, Kristi, Wissotski, Marina, Yu, Yeisoo, Ammiraju, Jetty S. S., Wolny, Elżbieta, Idziak, Ewelina, Betekhtin, Alexander, Kudrna, Dave, Hasterok, Robert, Wing, Rod A.

مصطلحات موضوعية: Bacteria, Brachypodium distachyon, Chromosome Mapping, Hordeum, Fluorescence in Situ Hybridisation (FISH)

الوصف: The pooid subfamily of grasses includes some of the most important crop, forage and turf species, such as wheat, barley and Lolium. Developing genomic resources, such as whole-genome physical maps, for analysing the large and complex genomes of these crops and for facilitating biological research in grasses is an important goal in plant biology. We describe a bacterial artificial chromosome (BAC)-based physical map of the wild pooid grass Brachypodium distachyon and integrate this with whole genome shotgun sequence (WGS) assemblies using BAC end sequences (BES). The resulting physical map contains 26 contigs spanning the 272 Mb genome. BES from the physical map were also used to integrate a genetic map. This provides an independent vaildation and confirmation of the published WGS assembly. Mapped BACs were used in Fluorescence In Situ Hybridisation (FISH) experiments to align the integrated physical map and sequence assemblies to chromosomes with high resolution. The physical, genetic and cytogenetic maps, integrated with whole genome shotgun sequence assemblies, enhance the accuracy and durability of this important genome sequence and will directly facilitate gene isolation.

العلاقة: PLoS ONE, (2010), no. 10, art. no. e13461; http://hdl.handle.net/20.500.12128/526Test

الإتاحة: https://doi.org/20.500.12128/526Test
https://doi.org/10.1371/journal.pone.0013461Test
https://hdl.handle.net/20.500.12128/526Test