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Items: 1 to 50 of 76

1.

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

Valliyodan B, Cannon SB, Bayer PE, Shu S, Brown AV, Ren L, Jenkins J, Chung CY, Chan TF, Daum CG, Plott C, Hastie A, Baruch K, Barry KW, Huang W, Patil G, Varshney RK, Hu H, Batley J, Yuan Y, Song Q, Stupar RM, Goodstein DM, Stacey G, Lam HM, Jackson SA, Schmutz J, Grimwood J, Edwards D, Nguyen HT.

Plant J. 2019 Dec;100(5):1066-1082. doi: 10.1111/tpj.14500. Epub 2019 Oct 28.

PMID:
31433882
2.

Genome-wide associations and epistatic interactions for internode number, plant height, seed weight and seed yield in soybean.

Assefa T, Otyama PI, Brown AV, Kalberer SR, Kulkarni RS, Cannon SB.

BMC Genomics. 2019 Jun 26;20(1):527. doi: 10.1186/s12864-019-5907-7.

3.

Evaluation of linkage disequilibrium, population structure, and genetic diversity in the U.S. peanut mini core collection.

Otyama PI, Wilkey A, Kulkarni R, Assefa T, Chu Y, Clevenger J, O'Connor DJ, Wright GC, Dezern SW, MacDonald GE, Anglin NL, Cannon EKS, Ozias-Akins P, Cannon SB.

BMC Genomics. 2019 Jun 11;20(1):481. doi: 10.1186/s12864-019-5824-9.

4.

Cercis: A Non-polyploid Genomic Relic Within the Generally Polyploid Legume Family.

Stai JS, Yadav A, Sinou C, Bruneau A, Doyle JJ, Fernández-Baca D, Cannon SB.

Front Plant Sci. 2019 Apr 11;10:345. doi: 10.3389/fpls.2019.00345. eCollection 2019.

5.

The genome sequence of segmental allotetraploid peanut Arachis hypogaea.

Bertioli DJ, Jenkins J, Clevenger J, Dudchenko O, Gao D, Seijo G, Leal-Bertioli SCM, Ren L, Farmer AD, Pandey MK, Samoluk SS, Abernathy B, Agarwal G, Ballén-Taborda C, Cameron C, Campbell J, Chavarro C, Chitikineni A, Chu Y, Dash S, El Baidouri M, Guo B, Huang W, Kim KD, Korani W, Lanciano S, Lui CG, Mirouze M, Moretzsohn MC, Pham M, Shin JH, Shirasawa K, Sinharoy S, Sreedasyam A, Weeks NT, Zhang X, Zheng Z, Sun Z, Froenicke L, Aiden EL, Michelmore R, Varshney RK, Holbrook CC, Cannon EKS, Scheffler BE, Grimwood J, Ozias-Akins P, Cannon SB, Jackson SA, Schmutz J.

Nat Genet. 2019 May;51(5):877-884. doi: 10.1038/s41588-019-0405-z. Epub 2019 May 1.

PMID:
31043755
6.

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

Lonardi S, Muñoz-Amatriaín M, Liang Q, Shu S, Wanamaker SI, Lo S, Tanskanen J, Schulman AH, Zhu T, Luo MC, Alhakami H, Ounit R, Hasan AM, Verdier J, Roberts PA, Santos JRP, Ndeve A, Doležel J, Vrána J, Hokin SA, Farmer AD, Cannon SB, Close TJ.

Plant J. 2019 Jun;98(5):767-782. doi: 10.1111/tpj.14349.

7.

A reference-grade wild soybean genome.

Xie M, Chung CY, Li MW, Wong FL, Wang X, Liu A, Wang Z, Leung AK, Wong TH, Tong SW, Xiao Z, Fan K, Ng MS, Qi X, Yang L, Deng T, He L, Chen L, Fu A, Ding Q, He J, Chung G, Isobe S, Tanabata T, Valliyodan B, Nguyen HT, Cannon SB, Foyer CH, Chan TF, Lam HM.

Nat Commun. 2019 Mar 14;10(1):1216. doi: 10.1038/s41467-019-09142-9.

8.

Reconstruction of ancestral genome reveals chromosome evolution history for selected legume species.

Ren L, Huang W, Cannon SB.

New Phytol. 2019 Sep;223(4):2090-2103. doi: 10.1111/nph.15770. Epub 2019 Mar 23.

PMID:
30834536
9.

Ten quick tips for sharing open genomic data.

Brown AV, Campbell JD, Assefa T, Grant D, Nelson RT, Weeks NT, Cannon SB.

PLoS Comput Biol. 2018 Dec 27;14(12):e1006472. doi: 10.1371/journal.pcbi.1006472. eCollection 2018 Dec.

10.

A Mechanism for Genome Size Reduction Following Genomic Rearrangements.

Ren L, Huang W, Cannon EKS, Bertioli DJ, Cannon SB.

Front Genet. 2018 Oct 9;9:454. doi: 10.3389/fgene.2018.00454. eCollection 2018.

11.

Uneven recombination rate and linkage disequilibrium across a reference SNP map for common bean (Phaseolus vulgaris L.).

Blair MW, Cortés AJ, Farmer AD, Huang W, Ambachew D, Penmetsa RV, Carrasquilla-Garcia N, Assefa T, Cannon SB.

PLoS One. 2018 Mar 9;13(3):e0189597. doi: 10.1371/journal.pone.0189597. eCollection 2018.

12.

A transcriptome-SNP-derived linkage map of Apios americana (potato bean) provides insights about genome re-organization and synteny conservation in the phaseoloid legumes.

Singh J, Kalberer SR, Belamkar V, Assefa T, Nelson MN, Farmer AD, Blackmon WJ, Cannon SB.

Theor Appl Genet. 2018 Feb;131(2):333-351. doi: 10.1007/s00122-017-3004-3. Epub 2017 Oct 25.

13.

Genomics-assisted characterization of a breeding collection of Apios americana, an edible tuberous legume.

Belamkar V, Farmer AD, Weeks NT, Kalberer SR, Blackmon WJ, Cannon SB.

Sci Rep. 2016 Oct 10;6:34908. doi: 10.1038/srep34908.

14.

Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.).

Martin K, Singh J, Hill JH, Whitham SA, Cannon SB.

BMC Genomics. 2016 Aug 11;17(1):613. doi: 10.1186/s12864-016-2976-8.

15.

Characterization and development mechanism of Apios americana tuber starch.

Yangcheng H, Belamkar V, Cannon SB, Jane JL.

Carbohydr Polym. 2016 Oct 20;151:198-205. doi: 10.1016/j.carbpol.2016.05.062. Epub 2016 May 19.

PMID:
27474558
16.

The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut.

Bertioli DJ, Cannon SB, Froenicke L, Huang G, Farmer AD, Cannon EK, Liu X, Gao D, Clevenger J, Dash S, Ren L, Moretzsohn MC, Shirasawa K, Huang W, Vidigal B, Abernathy B, Chu Y, Niederhuth CE, Umale P, Araújo AC, Kozik A, Kim KD, Burow MD, Varshney RK, Wang X, Zhang X, Barkley N, Guimarães PM, Isobe S, Guo B, Liao B, Stalker HT, Schmitz RJ, Scheffler BE, Leal-Bertioli SC, Xun X, Jackson SA, Michelmore R, Ozias-Akins P.

Nat Genet. 2016 Apr;48(4):438-46. doi: 10.1038/ng.3517. Epub 2016 Feb 22.

PMID:
26901068
17.

Legume information system (LegumeInfo.org): a key component of a set of federated data resources for the legume family.

Dash S, Campbell JD, Cannon EK, Cleary AM, Huang W, Kalberer SR, Karingula V, Rice AG, Singh J, Umale PE, Weeks NT, Wilkey AP, Farmer AD, Cannon SB.

Nucleic Acids Res. 2016 Jan 4;44(D1):D1181-8. doi: 10.1093/nar/gkv1159. Epub 2015 Nov 5.

18.

An ontology approach to comparative phenomics in plants.

Oellrich A, Walls RL, Cannon EK, Cannon SB, Cooper L, Gardiner J, Gkoutos GV, Harper L, He M, Hoehndorf R, Jaiswal P, Kalberer SR, Lloyd JP, Meinke D, Menda N, Moore L, Nelson RT, Pujar A, Lawrence CJ, Huala E.

Plant Methods. 2015 Feb 25;11:10. doi: 10.1186/s13007-015-0053-y. eCollection 2015.

19.

Comprehensive characterization and RNA-Seq profiling of the HD-Zip transcription factor family in soybean (Glycine max) during dehydration and salt stress.

Belamkar V, Weeks NT, Bharti AK, Farmer AD, Graham MA, Cannon SB.

BMC Genomics. 2014 Nov 3;15:950. doi: 10.1186/1471-2164-15-950.

20.

Multiple polyploidy events in the early radiation of nodulating and nonnodulating legumes.

Cannon SB, McKain MR, Harkess A, Nelson MN, Dash S, Deyholos MK, Peng Y, Joyce B, Stewart CN Jr, Rolf M, Kutchan T, Tan X, Chen C, Zhang Y, Carpenter E, Wong GK, Doyle JJ, Leebens-Mack J.

Mol Biol Evol. 2015 Jan;32(1):193-210. doi: 10.1093/molbev/msu296. Epub 2014 Oct 27.

21.

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

Schmutz J, McClean PE, Mamidi S, Wu GA, Cannon SB, Grimwood J, Jenkins J, Shu S, Song Q, Chavarro C, Torres-Torres M, Geffroy V, Moghaddam SM, Gao D, Abernathy B, Barry K, Blair M, Brick MA, Chovatia M, Gepts P, Goodstein DM, Gonzales M, Hellsten U, Hyten DL, Jia G, Kelly JD, Kudrna D, Lee R, Richard MM, Miklas PN, Osorno JM, Rodrigues J, Thareau V, Urrea CA, Wang M, Yu Y, Zhang M, Wing RA, Cregan PB, Rokhsar DS, Jackson SA.

Nat Genet. 2014 Jul;46(7):707-13. doi: 10.1038/ng.3008. Epub 2014 Jun 8.

22.

A roadmap for functional structural variants in the soybean genome.

Anderson JE, Kantar MB, Kono TY, Fu F, Stec AO, Song Q, Cregan PB, Specht JE, Diers BW, Cannon SB, McHale LK, Stupar RM.

G3 (Bethesda). 2014 May 22;4(7):1307-18. doi: 10.1534/g3.114.011551.

23.

Comprehensive transcriptome assembly of Chickpea (Cicer arietinum L.) using sanger and next generation sequencing platforms: development and applications.

Kudapa H, Azam S, Sharpe AG, Taran B, Li R, Deonovic B, Cameron C, Farmer AD, Cannon SB, Varshney RK.

PLoS One. 2014 Jan 23;9(1):e86039. doi: 10.1371/journal.pone.0086039. eCollection 2014.

24.

Students' perceptions of holistic nursing care.

Boswell C, Cannon SB, Miller J.

Nurs Educ Perspect. 2013 Sep-Oct;34(5):329-33.

PMID:
24245384
25.

The model legume genomes.

Cannon SB.

Methods Mol Biol. 2013;1069:1-14. doi: 10.1007/978-1-62703-613-9_1. Review.

PMID:
23996304
26.

IBI series winner. Keeping an eye on biology.

Singer SR, Schwarz JA, Manduca CA, Fox SP, Iverson ER, Taylor BJ, Cannon SB, May GD, Maki SL, Farmer AD, Doyle JJ.

Science. 2013 Jan 25;339(6118):408-9. doi: 10.1126/science.1229848. No abstract available.

27.

Genome-wide characterization of nonreference transposons reveals evolutionary propensities of transposons in soybean.

Tian Z, Zhao M, She M, Du J, Cannon SB, Liu X, Xu X, Qi X, Li MW, Lam HM, Ma J.

Plant Cell. 2012 Nov;24(11):4422-36. doi: 10.1105/tpc.112.103630. Epub 2012 Nov 21.

28.

Evolutionary and comparative analyses of the soybean genome.

Cannon SB, Shoemaker RC.

Breed Sci. 2012 Jan;61(5):437-44. doi: 10.1270/jsbbs.61.437. Epub 2012 Feb 4.

29.

Best practices in academic mentoring: a model for excellence.

Nick JM, Delahoyde TM, Del Prato D, Mitchell C, Ortiz J, Ottley C, Young P, Cannon SB, Lasater K, Reising D, Siktberg L.

Nurs Res Pract. 2012;2012:937906. doi: 10.1155/2012/937906. Epub 2012 May 23.

30.

A comprehensive transcriptome assembly of Pigeonpea (Cajanus cajan L.) using sanger and second-generation sequencing platforms.

Kudapa H, Bharti AK, Cannon SB, Farmer AD, Mulaosmanovic B, Kramer R, Bohra A, Weeks NT, Crow JA, Tuteja R, Shah T, Dutta S, Gupta DK, Singh A, Gaikwad K, Sharma TR, May GD, Singh NK, Varshney RK.

Mol Plant. 2012 Sep;5(5):1020-8. doi: 10.1093/mp/ssr111. Epub 2012 Jan 11.

31.

Pericentromeric effects shape the patterns of divergence, retention, and expression of duplicated genes in the paleopolyploid soybean.

Du J, Tian Z, Sui Y, Zhao M, Song Q, Cannon SB, Cregan P, Ma J.

Plant Cell. 2012 Jan;24(1):21-32. doi: 10.1105/tpc.111.092759. Epub 2012 Jan 6.

32.

Chromosome visualization tool: a whole genome viewer.

Cannon EK, Cannon SB.

Int J Plant Genomics. 2011;2011:373875. doi: 10.1155/2011/373875. Epub 2011 Dec 19.

33.

The Medicago genome provides insight into the evolution of rhizobial symbioses.

Young ND, Debellé F, Oldroyd GE, Geurts R, Cannon SB, Udvardi MK, Benedito VA, Mayer KF, Gouzy J, Schoof H, Van de Peer Y, Proost S, Cook DR, Meyers BC, Spannagl M, Cheung F, De Mita S, Krishnakumar V, Gundlach H, Zhou S, Mudge J, Bharti AK, Murray JD, Naoumkina MA, Rosen B, Silverstein KA, Tang H, Rombauts S, Zhao PX, Zhou P, Barbe V, Bardou P, Bechner M, Bellec A, Berger A, Bergès H, Bidwell S, Bisseling T, Choisne N, Couloux A, Denny R, Deshpande S, Dai X, Doyle JJ, Dudez AM, Farmer AD, Fouteau S, Franken C, Gibelin C, Gish J, Goldstein S, González AJ, Green PJ, Hallab A, Hartog M, Hua A, Humphray SJ, Jeong DH, Jing Y, Jöcker A, Kenton SM, Kim DJ, Klee K, Lai H, Lang C, Lin S, Macmil SL, Magdelenat G, Matthews L, McCorrison J, Monaghan EL, Mun JH, Najar FZ, Nicholson C, Noirot C, O'Bleness M, Paule CR, Poulain J, Prion F, Qin B, Qu C, Retzel EF, Riddle C, Sallet E, Samain S, Samson N, Sanders I, Saurat O, Scarpelli C, Schiex T, Segurens B, Severin AJ, Sherrier DJ, Shi R, Sims S, Singer SR, Sinharoy S, Sterck L, Viollet A, Wang BB, Wang K, Wang M, Wang X, Warfsmann J, Weissenbach J, White DD, White JD, Wiley GB, Wincker P, Xing Y, Yang L, Yao Z, Ying F, Zhai J, Zhou L, Zuber A, Dénarié J, Dixon RA, May GD, Schwartz DC, Rogers J, Quétier F, Town CD, Roe BA.

Nature. 2011 Nov 16;480(7378):520-4. doi: 10.1038/nature10625.

34.

Changes in twelve homoeologous genomic regions in soybean following three rounds of polyploidy.

Severin AJ, Cannon SB, Graham MM, Grant D, Shoemaker RC.

Plant Cell. 2011 Sep;23(9):3129-36. doi: 10.1105/tpc.111.089573. Epub 2011 Sep 13.

35.

Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa.

Hiremath PJ, Farmer A, Cannon SB, Woodward J, Kudapa H, Tuteja R, Kumar A, Bhanuprakash A, Mulaosmanovic B, Gujaria N, Krishnamurthy L, Gaur PM, Kavikishor PB, Shah T, Srinivasan R, Lohse M, Xiao Y, Town CD, Cook DR, May GD, Varshney RK.

Plant Biotechnol J. 2011 Oct;9(8):922-31. doi: 10.1111/j.1467-7652.2011.00625.x. Epub 2011 May 25.

36.

Defining the transcriptome assembly and its use for genome dynamics and transcriptome profiling studies in pigeonpea (Cajanus cajan L.).

Dubey A, Farmer A, Schlueter J, Cannon SB, Abernathy B, Tuteja R, Woodward J, Shah T, Mulasmanovic B, Kudapa H, Raju NL, Gothalwal R, Pande S, Xiao Y, Town CD, Singh NK, May GD, Jackson S, Varshney RK.

DNA Res. 2011 Jun;18(3):153-64. doi: 10.1093/dnares/dsr007. Epub 2011 May 12.

37.

Gene expression patterns are correlated with genomic and genic structure in soybean.

Woody JL, Severin AJ, Bolon YT, Joseph B, Diers BW, Farmer AD, Weeks N, Muehlbauer GJ, Nelson RT, Grant D, Specht JE, Graham MA, Cannon SB, May GD, Vance CP, Shoemaker RC.

Genome. 2011 Jan;54(1):10-8. doi: 10.1139/G10-090.

PMID:
21217801
38.

Applying small-scale DNA signatures as an aid in assembling soybean chromosome sequences.

Peto M, Grant DM, Shoemaker RC, Cannon SB.

Adv Bioinformatics. 2010. pii: 976792. doi: 10.1155/2010/976792. Epub 2010 Aug 19.

39.

RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome.

Severin AJ, Woody JL, Bolon YT, Joseph B, Diers BW, Farmer AD, Muehlbauer GJ, Nelson RT, Grant D, Specht JE, Graham MA, Cannon SB, May GD, Vance CP, Shoemaker RC.

BMC Plant Biol. 2010 Aug 5;10:160. doi: 10.1186/1471-2229-10-160.

40.

Polyploidy did not predate the evolution of nodulation in all legumes.

Cannon SB, Ilut D, Farmer AD, Maki SL, May GD, Singer SR, Doyle JJ.

PLoS One. 2010 Jul 16;5(7):e11630. doi: 10.1371/journal.pone.0011630.

41.

Evolutionary conservation, diversity and specificity of LTR-retrotransposons in flowering plants: insights from genome-wide analysis and multi-specific comparison.

Du J, Tian Z, Hans CS, Laten HM, Cannon SB, Jackson SA, Shoemaker RC, Ma J.

Plant J. 2010 Aug;63(4):584-98. doi: 10.1111/j.1365-313X.2010.04263.x.

42.

Complementary genetic and genomic approaches help characterize the linkage group I seed protein QTL in soybean.

Bolon YT, Joseph B, Cannon SB, Graham MA, Diers BW, Farmer AD, May GD, Muehlbauer GJ, Specht JE, Tu ZJ, Weeks N, Xu WW, Shoemaker RC, Vance CP.

BMC Plant Biol. 2010 Mar 3;10:41. doi: 10.1186/1471-2229-10-41.

43.

High-throughput SNP discovery through deep resequencing of a reduced representation library to anchor and orient scaffolds in the soybean whole genome sequence.

Hyten DL, Cannon SB, Song Q, Weeks N, Fickus EW, Shoemaker RC, Specht JE, Farmer AD, May GD, Cregan PB.

BMC Genomics. 2010 Jan 15;11:38. doi: 10.1186/1471-2164-11-38.

44.

Genome sequence of the palaeopolyploid soybean.

Schmutz J, Cannon SB, Schlueter J, Ma J, Mitros T, Nelson W, Hyten DL, Song Q, Thelen JJ, Cheng J, Xu D, Hellsten U, May GD, Yu Y, Sakurai T, Umezawa T, Bhattacharyya MK, Sandhu D, Valliyodan B, Lindquist E, Peto M, Grant D, Shu S, Goodstein D, Barry K, Futrell-Griggs M, Abernathy B, Du J, Tian Z, Zhu L, Gill N, Joshi T, Libault M, Sethuraman A, Zhang XC, Shinozaki K, Nguyen HT, Wing RA, Cregan P, Specht J, Grimwood J, Rokhsar D, Stacey G, Shoemaker RC, Jackson SA.

Nature. 2010 Jan 14;463(7278):178-83. doi: 10.1038/nature08670. Erratum in: Nature. 2010 May 6;465(7294):120.

PMID:
20075913
45.

SoyBase, the USDA-ARS soybean genetics and genomics database.

Grant D, Nelson RT, Cannon SB, Shoemaker RC.

Nucleic Acids Res. 2010 Jan;38(Database issue):D843-6. doi: 10.1093/nar/gkp798. Epub 2009 Dec 14.

46.

A nomadic subtelomeric disease resistance gene cluster in common bean.

David P, Chen NW, Pedrosa-Harand A, Thareau V, Sévignac M, Cannon SB, Debouck D, Langin T, Geffroy V.

Plant Physiol. 2009 Nov;151(3):1048-65. doi: 10.1104/pp.109.142109. Epub 2009 Sep 23.

47.

Three sequenced legume genomes and many crop species: rich opportunities for translational genomics.

Cannon SB, May GD, Jackson SA.

Plant Physiol. 2009 Nov;151(3):970-7. doi: 10.1104/pp.109.144659. Epub 2009 Sep 16. Review. No abstract available.

48.

Venturing beyond beans and peas: what can we learn from Chamaecrista?

Singer SR, Maki SL, Farmer AD, Ilut D, May GD, Cannon SB, Doyle JJ.

Plant Physiol. 2009 Nov;151(3):1041-7. doi: 10.1104/pp.109.144774. Epub 2009 Sep 15. Review. No abstract available.

49.

Evolutionary genomics of LysM genes in land plants.

Zhang XC, Cannon SB, Stacey G.

BMC Evol Biol. 2009 Aug 3;9:183. doi: 10.1186/1471-2148-9-183.

50.

An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes.

Bertioli DJ, Moretzsohn MC, Madsen LH, Sandal N, Leal-Bertioli SC, Guimarães PM, Hougaard BK, Fredslund J, Schauser L, Nielsen AM, Sato S, Tabata S, Cannon SB, Stougaard J.

BMC Genomics. 2009 Jan 23;10:45. doi: 10.1186/1471-2164-10-45.

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