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Activities

Employment (1)

DOE Joint Genome Institute: Berkeley, CA, US

2016-10-01 to 2023-06-30
Employment
Source: Self-asserted source
Shengqiang Shu

Education and qualifications (1)

University of Minnesota: MN, MN, US

Ph. D (Entomology)
Education
Source: Self-asserted source
Shengqiang Shu

Works (50 of 95)

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Page 1 of 2

Allopolyploidy expanded gene content but not pangenomic variation in the hexaploid oilseed Camelina sativa

GENETICS
2025-01-08 | Journal article
Contributors: Kevin A Bird; Jordan R Brock; Paul P Grabowski; Avril M Harder; Adam L Healy; Shengqiang Shu; Kerrie Barry; LoriBeth Boston; Christopher Daum; Jie Guo et al.
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Crossref

Assembly, comparative analysis, and utilization of a single haplotype reference genome for soybean

The Plant Journal
2024-11 | Journal article
Part of ISSN: 0960-7412
Part of ISSN: 1365-313X
Contributors: Mary Jane C. Espina; John T. Lovell; Jerry Jenkins; Shengqiang Shu; Avinash Sreedasyam; Brandon D. Jordan; Jenell Webber; LoriBeth Boston; TomĆ”Å” BrÅÆna; Jayson Talag et al.
Source: Self-asserted source
Shengqiang Shu

ZW sex chromosome structure in Amborella trichopoda

Nature Plants
2024-11-25 | Journal article
Contributors: Sarah B. Carey; Laramie Akƶzbek; John T. Lovell; Jerry Jenkins; Adam L. Healey; Shengqiang Shu; Paul Grabowski; Alan Yocca; Ada Stewart; Teresa Jones et al.
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Crossref

Genomes of Poaceae sisters reveal key metabolic innovations preceding the emergence of grasses

2024-11-07 | Preprint
Contributors: Yuri Takeda-Kimura; Bethany Moore; Samuel Holden; Sontosh K. Deb; Matt Barrett; David Lorence; Marcos V. V. de Oliveira; Jane Grimwood; Melissa Williams; Lori Beth Boston et al.
Source: Self-asserted source
Shengqiang Shu

Genome resources for three modern cotton lines guide future breeding efforts

Nature Plants
2024-05-30 | Journal article
Contributors: Avinash Sreedasyam; John T. Lovell; Sujan Mamidi; Sameer Khanal; Jerry W. Jenkins; Christopher Plott; Kempton B. Bryan; Zhigang Li; Shengqiang Shu; Joseph Carlson et al.
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Crossref

The complex polyploid genome architecture of sugarcane

Nature
2024-04-25 | Journal article
Contributors: A. L. Healey; O. Garsmeur; J. T. Lovell; S. Shengquiang; A. Sreedasyam; J. Jenkins; C. B. Plott; N. Piperidis; N. Pompidor; V. Llaca et al.
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Crossref

The first two chromosomeā€scale genome assemblies of American hazelnut enable comparative genomic analysis of the genus Corylus

Plant Biotechnology Journal
2024-02 | Journal article
Contributors: Scott H. Brainard; Dean M. Sanders; Tomas Bruna; Shengqiang Shu; Julie C. Dawson
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Crossref

Haplotypeā€resolved genome assembly of Populus tremula Ɨ P. alba reveals aspenā€specific megabase satellite DNA

The Plant Journal
2023-11 | Journal article
Contributors: Ran Zhou; Jerry W Jenkins; Yibing Zeng; Shengqiang Shu; Hosung Jang; Scott A. Harding; Melissa Williams; Christopher Plott; Kerrie W. Barry; Maxim Koriabine et al.
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Crossref

The reference genome and abiotic stress responses of the model perennial grass <i>Brachypodium sylvaticum</i>

G3: Genes, Genomes, Genetics
2023-10-26 | Journal article | Author
Part of ISSN: 2160-1836
Contributors: Li Lei; Sean P Gordon; Lifeng Liu; Nir Sade; John Lovell; Maria Del Mar Rubio Wilhelmi; Vasanth Singan; Avinash Sreedasyam; Rachel Hestrin; Jeremy Phillips et al.
Source: Self-asserted source
Shengqiang Shu

JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom

Nucleic Acids Research
2023-09-08 | Journal article
Contributors: Avinash Sreedasyam; Christopher Plott; Md Shakhawat Hossain; John T Lovell; Jane Grimwood; Jerry W Jenkins; Christopher Daum; Kerrie Barry; Joseph Carlson; Shengqiang Shu et al.
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Crossref

A view of the panā€genome of domesticated Cowpea (<i>Vigna unguiculata</i> [L.] Walp.)

The Plant Genome
2023-03-22 | Journal article
Part of ISSN: 1940-3372
Part of ISSN: 1940-3372
Contributors: Qihua Liang; MarĆ­a MuƱozā€AmatriaĆ­n; Shengqiang Shu; Sassoum Lo; Xinyi Wu; Joseph W. Carlson; Patrick Davidson; David M. Goodstein; Jeremy Phillips; Nadia M. Janis et al.
Source: Self-asserted source
Shengqiang Shu

The Chlamydomonas Genome Project, version 6: Reference assemblies for mating-type plus and minus strains reveal extensive structural mutation in the laboratory

The Plant Cell
2023-02-20 | Journal article
Contributors: Rory J Craig; Sean D Gallaher; Shengqiang Shu; Patrice A SalomĆ©; Jerry W Jenkins; Crysten E Blaby-Haas; Samuel O Purvine; Samuel Oā€™Donnell; Kerrie Barry; Jane Grimwood et al.
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Crossref

Multiple origins, one evolutionary trajectory: gradual evolution characterizes distinct lineages of allotetraploid Brachypodium

Genetics
2023-02-09 | Journal article
Contributors: Virginia T Scarlett; John T Lovell; Mingqin Shao; Jeremy Phillips; Shengqiang Shu; Joanna Lusinska; David M Goodstein; Jerry Jenkins; Jane Grimwood; Kerrie Barry et al.
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Crossref

Newly identified sex chromosomes in the Sphagnum (peat moss) genome alter carbon sequestration and ecosystem dynamics

Nature Plants
2023-02-06 | Journal article
Contributors: Adam L. Healey; Bryan Piatkowski; John T. Lovell; Avinash Sreedasyam; Sarah B. Carey; Sujan Mamidi; Shengqiang Shu; Chris Plott; Jerry Jenkins; Travis Lawrence et al.
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Crossref

Genome of Paspalum vaginatum and the role of trehalose mediated autophagy in increasing maize biomass

Nature Communications
2022-12-13 | Journal article
Contributors: Guangchao Sun; Nishikant Wase; Shengqiang Shu; Jerry Jenkins; Bangjun Zhou; J. Vladimir Torres-RodrĆ­guez; Cindy Chen; Laura Sandor; Chris Plott; Yuko Yoshinga et al.
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Crossref

Dynamic genome evolution in a model fern

Nature Plants
2022-09-01 | Journal article
Contributors: D. Blaine Marchant; Guang Chen; Shengguan Cai; Fei Chen; Peter Schafran; Jerry Jenkins; Shengqiang Shu; Chris Plott; Jenell Webber; John T. Lovell et al.
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Crossref

Multiplex knockout of trichome-regulating MYB duplicates in hybrid poplar using a single gRNA

Plant Physiology
2022-06-01 | Journal article
Contributors: William P Bewg; Scott A Harding; Nancy L Engle; Brajesh N Vaidya; Ran Zhou; Jacob Reeves; Thomas W Horn; Nirmal Joshee; Jerry W Jenkins; Shengqiang Shu et al.
Source: check_circle
Crossref

Genome sequence and evolution of Betula platyphylla

Horticulture Research
2021 | Journal article
EID:

2-s2.0-85101125024

Part of ISSN: 20527276
Contributors: Chen, S.; Wang, Y.; Yu, L.; Zheng, T.; Wang, S.; Yue, Z.; Jiang, J.; Kumari, S.; Zheng, C.; Tang, H. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass

Nature
2021 | Journal article
EID:

2-s2.0-85099978513

Part of ISSN: 14764687 00280836
Contributors: Lovell, J.T.; MacQueen, A.H.; Mamidi, S.; Bonnette, J.; Jenkins, J.; Napier, J.D.; Sreedasyam, A.; Healey, A.; Session, A.; Shu, S. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier
grade
Preferred source (of 2)ā€Ž

Hybridization History and Repetitive Element Content in the Genome of a Homoploid Hybrid, Yucca gloriosa (Asparagaceae)

Frontiers in Plant Science
2021 | Journal article
EID:

2-s2.0-85100081360

Part of ISSN: 1664462X
Contributors: Heyduk, K.; McAssey, E.V.; Grimwood, J.; Shu, S.; Schmutz, J.; McKain, M.R.; Leebens-Mack, J.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Pests, diseases, and aridity have shaped the genome of Corymbia citriodora

Communications Biology
2021 | Journal article
EID:

2-s2.0-85105585337

Part of ISSN: 23993642
Contributors: Healey, A.L.; Shepherd, M.; King, G.J.; Butler, J.B.; Freeman, J.S.; Lee, D.J.; Potts, B.M.; Silva-Junior, O.B.; Baten, A.; Jenkins, J. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The contributions from the progenitor genomes of the mesopolyploid brassiceae are evolutionarily distinct but functionally compatible

Genome Research
2021 | Journal article
EID:

2-s2.0-85106069567

Part of ISSN: 15495469 10889051
Contributors: Hao, Y.; Mabry, M.E.; Edger, P.P.; Freeling, M.; Zheng, C.; Jin, L.; VanBuren, R.; Colle, M.; An, H.; Abrahams, R.S. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Gene-rich UV sex chromosomes harbor conserved regulators of sexual development

Science Advances
2021-07-02 | Journal article
Contributors: Sarah B. Carey; Jerry Jenkins; John T. Lovell; Florian Maumus; Avinash Sreedasyam; Adam C. Payton; Shengqiang Shu; George P. Tiley; Noe Fernandez-Pozo; Adam Healey et al.
Source: check_circle
Crossref

A chromosome-scale reference genome of trifoliate orange (Poncirus trifoliata) provides insights into disease resistance, cold tolerance and genome evolution in Citrus

Plant Journal
2020 | Journal article
EID:

2-s2.0-85092662664

Part of ISBN:

1365313X 09607412

Contributors: Peng, Z.; Bredeson, J.V.; Wu, G.A.; Shu, S.; Rawat, N.; Du, D.; Parajuli, S.; Yu, Q.; You, Q.; Rokhsar, D.S. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

A genome assembly and the somatic genetic and epigenetic mutation rate in a wild long-lived perennial Populus trichocarpa

Genome Biology
2020 | Journal article
EID:

2-s2.0-85092372758

Part of ISBN:

1474760X 14747596

Contributors: Hofmeister, B.T.; Denkena, J.; ColomƩ-TatchƩ, M.; Shahryary, Y.; Hazarika, R.; Grimwood, J.; Mamidi, S.; Jenkins, J.; Grabowski, P.P.; Sreedasyam, A. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

A genome resource for green millet Setaria viridis enables discovery of agronomically valuable loci

Nature Biotechnology
2020 | Journal article
EID:

2-s2.0-85091997313

Part of ISSN: 15461696 10870156
Contributors: Mamidi, S.; Healey, A.; Huang, P.; Grimwood, J.; Jenkins, J.; Barry, K.; Sreedasyam, A.; Shu, S.; Lovell, J.T.; Feldman, M. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier
grade
Preferred source (of 2)ā€Ž

A willow sex chromosome reveals convergent evolution of complex palindromic repeats

Genome Biology
2020 | Journal article
EID:

2-s2.0-85079361853

Part of ISBN:

1474760X 14747596

Contributors: Zhou, R.; Macaya-Sanz, D.; Carlson, C.H.; Schmutz, J.; Jenkins, J.W.; Kudrna, D.; Sharma, A.; Sandor, L.; Shu, S.; Barry, K. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Genome biology of the paleotetraploid perennial biomass crop Miscanthus

Nature Communications
2020 | Journal article
EID:

2-s2.0-85094845165

Part of ISSN: 20411723
Contributors: Mitros, T.; Session, A.M.; James, B.T.; Wu, G.A.; Belaffif, M.B.; Clark, L.V.; Shu, S.; Dong, H.; Barling, A.; Holmes, J.R. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier
grade
Preferred source (of 2)ā€Ž

Genomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement

Nature Genetics
2020 | Journal article
EID:

2-s2.0-85084077674

Part of ISBN:

15461718 10614036

Contributors: Chen, Z.J.; Sreedasyam, A.; Ando, A.; Song, Q.; De Santiago, L.M.; Hulse-Kemp, A.M.; Ding, M.; Ye, W.; Kirkbride, R.C.; Jenkins, J. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors.

Nature communications
2020-07-29 | Journal article
Source: Self-asserted source
Shengqiang Shu
grade
Preferred source (of 3)ā€Ž

A chromosome-scale genome assembly and dense genetic map for Xenopus tropicalis

Developmental Biology
2019 | Journal article
EID:

2-s2.0-85065030132

Part of ISBN:

1095564X 00121606

Contributors: Mitros, T.; Lyons, J.B.; Session, A.M.; Jenkins, J.; Shu, S.; Kwon, T.; Lane, M.; Ng, C.; Grammer, T.C.; Khokha, M.K. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

A new reference genome for Sorghum bicolor reveals high levels of sequence similarity between sweet and grain genotypes: Implications for the genetics of sugar metabolism

BMC Genomics
2019 | Journal article
EID:

2-s2.0-85066300989

Part of ISBN:

14712164

Contributors: Cooper, E.A.; Brenton, Z.W.; Flinn, B.S.; Jenkins, J.; Shu, S.; Flowers, D.; Luo, F.; Wang, Y.; Xia, P.; Barry, K. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Construction and comparison of three reference-quality genome assemblies for soybean

Plant Journal
2019 | Journal article
EID:

2-s2.0-85074637999

Part of ISBN:

1365313X 09607412

Contributors: Valliyodan, B.; Cannon, S.B.; Bayer, P.E.; Shu, S.; Brown, A.V.; Ren, L.; Jenkins, J.; Chung, C.Y.L.; Chan, T.-F.; Daum, C.G. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Genome mapping of quantitative trait loci (QTL) controlling domestication traits of intermediate wheatgrass (Thinopyrum intermedium)

Theoretical and Applied Genetics
2019 | Journal article
EID:

2-s2.0-85067260764

Part of ISBN:

14322242 00405752

Contributors: Larson, S.; DeHaan, L.; Poland, J.; Zhang, X.; Dorn, K.; Kantarski, T.; Anderson, J.; Schmutz, J.; Grimwood, J.; Jenkins, J. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Genome sequence of the model rice variety KitaakeX

BMC Genomics
2019 | Journal article
EID:

2-s2.0-85075752611

Part of ISBN:

14712164

Contributors: Jain, R.; Jenkins, J.; Shu, S.; Chern, M.; Martin, J.A.; Copetti, D.; Duong, P.Q.; Pham, N.T.; Kudrna, D.A.; Talag, J. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The genome of cowpea (Vigna unguiculata [L.] Walp.)

Plant Journal
2019 | Journal article
EID:

2-s2.0-85066401547

Part of ISBN:

1365313X 09607412

Contributors: Lonardi, S.; MuƱoz-Amatriaƭn, M.; Liang, Q.; Shu, S.; Wanamaker, S.I.; Lo, S.; Tanskanen, J.; Schulman, A.H.; Zhu, T.; Luo, M.-C. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The Aquilegia genome provides insight into adaptive radiation and reveals an extraordinarily polymorphic chromosome with a unique history

eLife
2018 | Journal article
EID:

2-s2.0-85057082763

Part of ISBN:

2050084X

Contributors: Filiault, D.L.; Ballerini, E.S.; MandƔkovƔ, T.; Akƶz, G.; Derieg, N.J.; Schmutz, J.; Jenkins, J.; Grimwood, J.; Shu, S.; Hayes, R.D. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The genomic landscape of molecular responses to natural drought stress in Panicum hallii

Nature Communications
2018 | Journal article
EID:

2-s2.0-85058044970

Part of ISBN:

20411723

Contributors: Lovell, J.T.; Jenkins, J.; Lowry, D.B.; Mamidi, S.; Sreedasyam, A.; Weng, X.; Barry, K.; Bonnette, J.; Campitelli, B.; Daum, C. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The Physcomitrella patens chromosome-scale assembly reveals moss genome structure and evolution

Plant Journal
2018 | Journal article
EID:

2-s2.0-85040818508

Part of ISBN:

1365313X 09607412

Contributors: Lang, D.; Ullrich, K.K.; Murat, F.; Fuchs, J.; Jenkins, J.; Haas, F.B.; Piednoel, M.; Gundlach, H.; Van Bel, M.; Meyberg, R. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization

Plant Journal
2018 | Journal article
EID:

2-s2.0-85039153685

Part of ISBN:

1365313X 09607412

Contributors: McCormick, R.F.; Truong, S.K.; Sreedasyam, A.; Jenkins, J.; Shu, S.; Sims, D.; Kennedy, M.; Amirebrahimi, M.; Weers, B.D.; McKinley, B. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Draft nuclear genome sequence of the liquid hydrocarbon-accumulating green microalga botryococcus braunii race B (Showa)

Genome Announcements
2017 | Journal article
EID:

2-s2.0-85020217768

Part of ISBN:

21698287

Contributors: Browne, D.R.; Jenkins, J.; Schmutz, J.; Shu, S.; Barry, K.; Grimwood, J.; Chiniquy, J.; Sharma, A.; Niehaus, T.D.; Weiss, T.L. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure

Nature Communications
2017 | Journal article
EID:

2-s2.0-85038638355

Part of ISBN:

20411723

Contributors: Gordon, S.P.; Contreras-Moreira, B.; Woods, D.P.; Des Marais, D.L.; Burgess, D.; Shu, S.; Stritt, C.; Roulin, A.C.; Schackwitz, W.; Tyler, L. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Insights into Land Plant Evolution Garnered from the Marchantia polymorpha Genome

Cell
2017 | Journal article
EID:

2-s2.0-85030527411

Part of ISBN:

10974172 00928674

Contributors: Bowman, J.L.; Kohchi, T.; Yamato, K.T.; Jenkins, J.; Shu, S.; Ishizaki, K.; Yamaoka, S.; Nishihama, R.; Nakamura, Y.; Berger, F. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta)

Proceedings of the National Academy of Sciences of the United States of America
2017 | Journal article
EID:

2-s2.0-85026807072

Part of ISBN:

10916490 00278424

Contributors: Brawley, S.H.; Blouin, N.A.; Ficko-Blean, E.; Wheeler, G.L.; Lohr, M.; Goodson, H.V.; Jenkins, J.W.; Blaby-Haas, C.E.; Helliwell, K.E.; Chan, C.X. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The Kalanchoƫ genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism

Nature Communications
2017 | Journal article
EID:

2-s2.0-85036668202

Part of ISBN:

20411723

Contributors: Yang, X.; Hu, R.; Yin, H.; Jenkins, J.; Shu, S.; Tang, H.; Liu, D.; Weighill, D.A.; Cheol Yim, W.; Ha, J. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The Peach v2.0 release: High-resolution linkage mapping and deep resequencing improve chromosome-scale assembly and contiguity

BMC Genomics
2017 | Journal article
EID:

2-s2.0-85014960672

Part of ISBN:

14712164

Contributors: Verde, I.; Jenkins, J.; Dondini, L.; Micali, S.; Pagliarani, G.; Vendramin, E.; Paris, R.; Aramini, V.; Gazza, L.; Rossini, L. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Genome evolution in the allotetraploid frog Xenopus laevis

Nature
2016 | Journal article
EID:

2-s2.0-84992376574

Part of ISBN:

14764687 00280836

Contributors: Session, A.M.; Uno, Y.; Kwon, T.; Chapman, J.A.; Toyoda, A.; Takahashi, S.; Fukui, A.; Hikosaka, A.; Suzuki, A.; Kondo, M. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass

BMC Genomics
2016 | Journal article
EID:

2-s2.0-84994430958

Part of ISBN:

14712164

Contributors: Frazier, T.P.; Palmer, N.A.; Xie, F.; Tobias, C.M.; Donze-Reiner, T.J.; Bombarely, A.; Childs, K.L.; Shu, S.; Jenkins, J.W.; Schmutz, J. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

The Sphagnum Genome Project. A New Model for Ecological and Evolutionary Genomics.

Advances in Botanical Research
2016 | Book
EID:

2-s2.0-84964344588

Part of ISBN:

00652296

Contributors: Shaw, A.J.; Schmutz, J.; Devos, N.; Shu, S.; Carrell, A.A.; Weston, D.J.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier

A reference genome for common bean and genome-wide analysis of dual domestications

Nature Genetics
2014 | Journal article
EID:

2-s2.0-84903517143

Part of ISBN:

15461718 10614036

Contributors: Schmutz, J.; McClean, P.E.; Mamidi, S.; Wu, G.A.; Cannon, S.B.; Grimwood, J.; Jenkins, J.; Shu, S.; Song, Q.; Chavarro, C. et al.
Source: Self-asserted source
Shengqiang Shu via Scopus - Elsevier
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