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For: Boatwright JL, Sapkota S, Jin H, Schnable JC, Brenton Z, Boyles R, Kresovich S. Sorghum Association Panel whole-genome sequencing establishes cornerstone resource for dissecting genomic diversity. Plant J 2022;111:888-904. [PMID: 35653240 PMCID: PMC9544330 DOI: 10.1111/tpj.15853] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2022] [Revised: 05/27/2022] [Accepted: 05/28/2022] [Indexed: 05/26/2023]
Number Cited by Other Article(s)
1
Kasule F, Diack O, Mbaye M, Kakeeto R, Econopouly BF. Genomic resources, opportunities, and prospects for accelerated improvement of millets. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2024;137:273. [PMID: 39565376 PMCID: PMC11579216 DOI: 10.1007/s00122-024-04777-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2024] [Accepted: 10/28/2024] [Indexed: 11/21/2024]
2
Adeyanju AO, Rich PJ, Ejeta G. A powerful molecular marker to detect mutations at sorghum LOW GERMINATION STIMULANT 1. THE PLANT GENOME 2024:e20520. [PMID: 39358304 DOI: 10.1002/tpg2.20520] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2024] [Revised: 09/10/2024] [Accepted: 09/11/2024] [Indexed: 10/04/2024]
3
He C, Washburn JD, Schleif N, Hao Y, Kaeppler H, Kaeppler SM, Zhang Z, Yang J, Liu S. Trait association and prediction through integrative k-mer analysis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024;120:833-850. [PMID: 39259496 DOI: 10.1111/tpj.17012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2024] [Revised: 08/14/2024] [Accepted: 08/22/2024] [Indexed: 09/13/2024]
4
Korth N, Yang Q, Van Haute MJ, Tross MC, Peng B, Shrestha N, Zwiener-Malcom M, Mural RV, Schnable JC, Benson AK. Genomic co-localization of variation affecting agronomic and human gut microbiome traits in a meta-analysis of diverse sorghum. G3 (BETHESDA, MD.) 2024;14:jkae145. [PMID: 38979923 PMCID: PMC11373648 DOI: 10.1093/g3journal/jkae145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2024] [Revised: 03/26/2024] [Accepted: 06/05/2024] [Indexed: 07/10/2024]
5
Mishra S, Srivastava AK, Khan AW, Tran LSP, Nguyen HT. The era of panomics-driven gene discovery in plants. TRENDS IN PLANT SCIENCE 2024;29:995-1005. [PMID: 38658292 DOI: 10.1016/j.tplants.2024.03.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2023] [Revised: 03/01/2024] [Accepted: 03/08/2024] [Indexed: 04/26/2024]
6
Sahay S, Shrestha N, Dias HM, Mural RV, Grzybowski M, Schnable JC, Głowacka K. Nonphotochemical quenching kinetics GWAS in sorghum identifies genes that may play conserved roles in maize and Arabidopsis thaliana photoprotection. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024;119:3000-3014. [PMID: 39126284 DOI: 10.1111/tpj.16967] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2023] [Revised: 05/28/2024] [Accepted: 07/23/2024] [Indexed: 08/12/2024]
7
Yang J, Sun M, Ren X, Li P, Hui J, Zhang J, Lin G. Revealing the Genetic Diversity and Population Structure of Garlic Resource Cultivars and Screening of Core Cultivars Based on Specific Length Amplified Fragment Sequencing (SLAF-Seq). Genes (Basel) 2024;15:1135. [PMID: 39336726 PMCID: PMC11431738 DOI: 10.3390/genes15091135] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2024] [Revised: 08/26/2024] [Accepted: 08/26/2024] [Indexed: 09/30/2024]  Open
8
Liu F, Wodajo B, Zhao K, Tang S, Xie Q, Xie P. Unravelling sorghum functional genomics and molecular breeding: past achievements and future prospects. J Genet Genomics 2024:S1673-8527(24)00194-2. [PMID: 39053846 DOI: 10.1016/j.jgg.2024.07.016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2024] [Revised: 07/15/2024] [Accepted: 07/16/2024] [Indexed: 07/27/2024]
9
VanGessel C, Rice B, Felderhoff TJ, Charles JR, Pressoir G, Nalam V, Morris GP. Globally deployed sorghum aphid resistance gene RMES1 is vulnerable to biotype shifts but is bolstered by RMES2. THE PLANT GENOME 2024;17:e20452. [PMID: 38654377 DOI: 10.1002/tpg2.20452] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2023] [Revised: 03/21/2024] [Accepted: 03/23/2024] [Indexed: 04/25/2024]
10
Zhang Z, Gomes Viana JP, Zhang B, Walden KKO, Müller Paul H, Moose SP, Morris GP, Daum C, Barry KW, Shakoor N, Hudson ME. Major impacts of widespread structural variation on sorghum. Genome Res 2024;34:286-299. [PMID: 38479835 PMCID: PMC10984582 DOI: 10.1101/gr.278396.123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2023] [Accepted: 01/22/2024] [Indexed: 03/22/2024]
11
Jiao Y, Nigam D, Barry K, Daum C, Yoshinaga Y, Lipzen A, Khan A, Parasa SP, Wei S, Lu Z, Tello-Ruiz MK, Dhiman P, Burow G, Hayes C, Chen J, Brandizzi F, Mortimer J, Ware D, Xin Z. A large sequenced mutant library - valuable reverse genetic resource that covers 98% of sorghum genes. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024;117:1543-1557. [PMID: 38100514 DOI: 10.1111/tpj.16582] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Revised: 09/08/2023] [Accepted: 11/29/2023] [Indexed: 12/17/2023]
12
Zhou Y, Kathiresan N, Yu Z, Rivera LF, Yang Y, Thimma M, Manickam K, Chebotarov D, Mauleon R, Chougule K, Wei S, Gao T, Green CD, Zuccolo A, Xie W, Ware D, Zhang J, McNally KL, Wing RA. A high-performance computational workflow to accelerate GATK SNP detection across a 25-genome dataset. BMC Biol 2024;22:13. [PMID: 38273258 PMCID: PMC10809545 DOI: 10.1186/s12915-024-01820-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Accepted: 01/09/2024] [Indexed: 01/27/2024]  Open
13
Grant NP, Toy JJ, Funnell-Harris DL, Sattler SE. Deleterious mutations predicted in the sorghum (Sorghum bicolor) Maturity (Ma) and Dwarf (Dw) genes from whole-genome resequencing. Sci Rep 2023;13:16638. [PMID: 37789045 PMCID: PMC10547693 DOI: 10.1038/s41598-023-42306-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2023] [Accepted: 09/07/2023] [Indexed: 10/05/2023]  Open
14
Kumar N, Boatwright JL, Sapkota S, Brenton ZW, Ballén-Taborda C, Myers MT, Cox WA, Jordan KE, Kresovich S, Boyles RE. Discovering useful genetic variation in the seed parent gene pool for sorghum improvement. Front Genet 2023;14:1221148. [PMID: 37790706 PMCID: PMC10544336 DOI: 10.3389/fgene.2023.1221148] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2023] [Accepted: 09/04/2023] [Indexed: 10/05/2023]  Open
15
Wijewardane NK, Zhang H, Yang J, Schnable JC, Schachtman DP, Ge Y. A leaf-level spectral library to support high throughput plant phenotyping: Predictive accuracy and model transfer. JOURNAL OF EXPERIMENTAL BOTANY 2023:erad129. [PMID: 37018460 PMCID: PMC10400152 DOI: 10.1093/jxb/erad129] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Indexed: 06/19/2023]
16
Boatwright JL, Sapkota S, Kresovich S. Functional genomic effects of indels using Bayesian genome-phenome wide association studies in sorghum. Front Genet 2023;14:1143395. [PMID: 37065477 PMCID: PMC10102435 DOI: 10.3389/fgene.2023.1143395] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2023] [Accepted: 03/20/2023] [Indexed: 04/03/2023]  Open
17
Pardo J, Wai CM, Harman M, Nguyen A, Kremling KA, Romay MC, Lepak N, Bauerle TL, Buckler ES, Thompson AM, VanBuren R. Cross-species predictive modeling reveals conserved drought responses between maize and sorghum. Proc Natl Acad Sci U S A 2023;120:e2216894120. [PMID: 36848555 PMCID: PMC10013860 DOI: 10.1073/pnas.2216894120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Accepted: 01/30/2023] [Indexed: 03/01/2023]  Open
18
Ge F, Xie P, Wu Y, Xie Q. Genetic architecture and molecular regulation of sorghum domestication. ABIOTECH 2023;4:57-71. [PMID: 37220542 PMCID: PMC10199992 DOI: 10.1007/s42994-022-00089-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/28/2022] [Accepted: 11/28/2022] [Indexed: 05/25/2023]
19
Takanashi H. Genetic control of morphological traits useful for improving sorghum. BREEDING SCIENCE 2023;73:57-69. [PMID: 37168813 PMCID: PMC10165342 DOI: 10.1270/jsbbs.22069] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/17/2022] [Accepted: 11/14/2022] [Indexed: 05/13/2023]
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