Genome Sequencing and Genome Resources in Model Legumes

Overview

Journal Plant Physiol

Specialty Physiology

Date 2007 Jun 9

PMID 17556522

Citations 26

Authors

Shusei Sato

Yasukazu Nakamura

Erika Asamizu

Sachiko Isobe

Satoshi Tabata

Affiliations

Soon will be listed here.

Citing Articles

resources to study legume biology and symbiotic nitrogen fixation.

Nandety R, Wen J, Mysore K Fundam Res. 2024; 3(2):219-224.

PMID: 38932916 PMC: 11197554. DOI: 10.1016/j.fmre.2022.06.018.

Physical Seed Dormancy in Legumes: Molecular Advances and Perspectives.

Wen Z, Lu X, Wen J, Wang Z, Chai M Plants (Basel). 2024; 13(11).

PMID: 38891282 PMC: 11174410. DOI: 10.3390/plants13111473.

Genome-wide identification of Aux/IAA gene family in white clover (Trifolium repens L.) and functional verification of TrIAA18 under different abiotic stress.

Qi T, Yang W, Hassan M, Liu J, Yang Y, Zhou Q BMC Plant Biol. 2024; 24(1):346.

PMID: 38684940 PMC: 11057079. DOI: 10.1186/s12870-024-05034-3.

Optimization of Protocols for the Induction of Callus and Plant Regeneration in White Clover ( L.).

Qi T, Tang T, Zhou Q, Yang W, Hassan M, Cheng B Int J Mol Sci. 2023; 24(14).

PMID: 37511020 PMC: 10378747. DOI: 10.3390/ijms241411260.

Genome-wide identification and expression profiling of glutathione S-transferase family under multiple abiotic and biotic stresses in Medicago truncatula L.

Hasan M, Singh V, Islam S, Islam M, Ahsan R, Kaundal A PLoS One. 2021; 16(2):e0247170.

PMID: 33606812 PMC: 7894904. DOI: 10.1371/journal.pone.0247170.

References

Deavours B, Dixon R . Metabolic engineering of isoflavonoid biosynthesis in alfalfa. Plant Physiol. 2005; 138(4):2245-59. PMC: 1183411. DOI: 10.1104/pp.105.062539. View

Hebsgaard S, Korning P, TOLSTRUP N, Engelbrecht J, Rouze P, Brunak S . Splice site prediction in Arabidopsis thaliana pre-mRNA by combining local and global sequence information. Nucleic Acids Res. 1996; 24(17):3439-52. PMC: 146109. DOI: 10.1093/nar/24.17.3439. View

Kevei Z, Seres A, Kereszt A, Kalo P, Kiss P, Toth G . Significant microsynteny with new evolutionary highlights is detected between Arabidopsis and legume model plants despite the lack of macrosynteny. Mol Genet Genomics. 2005; 274(6):644-57. DOI: 10.1007/s00438-005-0057-9. View

Burge C, Karlin S . Prediction of complete gene structures in human genomic DNA. J Mol Biol. 1997; 268(1):78-94. DOI: 10.1006/jmbi.1997.0951. View

Huang X, Adams M, Zhou H, Kerlavage A . A tool for analyzing and annotating genomic sequences. Genomics. 1997; 46(1):37-45. DOI: 10.1006/geno.1997.4984. View

Lukashin A, Borodovsky M . GeneMark.hmm: new solutions for gene finding. Nucleic Acids Res. 1998; 26(4):1107-15. PMC: 147337. DOI: 10.1093/nar/26.4.1107. View

Brendel V, Kleffe J . Prediction of locally optimal splice sites in plant pre-mRNA with applications to gene identification in Arabidopsis thaliana genomic DNA. Nucleic Acids Res. 1998; 26(20):4748-57. PMC: 147908. DOI: 10.1093/nar/26.20.4748. View

Liu Y, Shirano Y, Fukaki H, Yanai Y, Tasaka M, Tabata S . Complementation of plant mutants with large genomic DNA fragments by a transformation-competent artificial chromosome vector accelerates positional cloning. Proc Natl Acad Sci U S A. 1999; 96(11):6535-40. PMC: 26917. DOI: 10.1073/pnas.96.11.6535. View

Gonzales M, Archuleta E, Farmer A, Gajendran K, Grant D, Shoemaker R . The Legume Information System (LIS): an integrated information resource for comparative legume biology. Nucleic Acids Res. 2004; 33(Database issue):D660-5. PMC: 540082. DOI: 10.1093/nar/gki128. View

10.

Lee Y, Tsai J, Sunkara S, Karamycheva S, Pertea G, Sultana R . The TIGR Gene Indices: clustering and assembling EST and known genes and integration with eukaryotic genomes. Nucleic Acids Res. 2004; 33(Database issue):D71-4. PMC: 540018. DOI: 10.1093/nar/gki064. View

11.

Young N, Cannon S, Sato S, Kim D, Cook D, Town C . Sequencing the genespaces of Medicago truncatula and Lotus japonicus. Plant Physiol. 2005; 137(4):1174-81. PMC: 1088310. DOI: 10.1104/pp.104.057034. View

12.

Zhu H, Choi H, Cook D, Shoemaker R . Bridging model and crop legumes through comparative genomics. Plant Physiol. 2005; 137(4):1189-96. PMC: 1088312. DOI: 10.1104/pp.104.058891. View

13.

Cannon S, Crow J, Heuer M, Wang X, Cannon E, Dwan C . Databases and information integration for the Medicago truncatula genome and transcriptome. Plant Physiol. 2005; 138(1):38-46. PMC: 1104158. DOI: 10.1104/pp.104.059204. View

14.

Asamizu E, Nakamura Y, Sato S, Tabata S . Comparison of the transcript profiles from the root and the nodulating root of the model legume Lotus japonicus by serial analysis of gene expression. Mol Plant Microbe Interact. 2005; 18(5):487-98. DOI: 10.1094/MPMI-18-0487. View

15.

Stacey G, Libault M, Brechenmacher L, Wan J, May G . Genetics and functional genomics of legume nodulation. Curr Opin Plant Biol. 2006; 9(2):110-21. DOI: 10.1016/j.pbi.2006.01.005. View

16.

Aubert G, Morin J, Jacquin F, Loridon K, Quillet M, Petit A . Functional mapping in pea, as an aid to the candidate gene selection and for investigating synteny with the model legume Medicago truncatula. Theor Appl Genet. 2006; 112(6):1024-41. DOI: 10.1007/s00122-005-0205-y. View

17.

Zhu H, Riely B, Burns N, Ane J . Tracing nonlegume orthologs of legume genes required for nodulation and arbuscular mycorrhizal symbioses. Genetics. 2006; 172(4):2491-9. PMC: 1456400. DOI: 10.1534/genetics.105.051185. View

18.

Hwang T, Moon J, Yu S, Yang K, Mohankumar S, Yu Y . Application of comparative genomics in developing molecular markers tightly linked to the virus resistance gene Rsv4 in soybean. Genome. 2006; 49(4):380-8. DOI: 10.1139/g05-111. View

19.

Sato S, Isobe S, Asamizu E, Ohmido N, Kataoka R, Nakamura Y . Comprehensive structural analysis of the genome of red clover (Trifolium pratense L.). DNA Res. 2006; 12(5):301-64. DOI: 10.1093/dnares/dsi018. View

20.

Nelson M, Phan H, Ellwood S, Moolhuijzen P, Hane J, Williams A . The first gene-based map of Lupinus angustifolius L.-location of domestication genes and conserved synteny with Medicago truncatula. Theor Appl Genet. 2006; 113(2):225-38. DOI: 10.1007/s00122-006-0288-0. View