NCGR Publications - 2011
 

The Medicago genome provides insight into the evolution of rhizobial symbiosis.
Young ND, Debelle F, Oldroyd GED, Geurts R, Cannon SB, Udvardi MK, Benedito VA, Mayer KFX, 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, Shiguo Zhou S, Mudge J, Bharti AK, Murray JD, Naoumkina MA, Rosen B, Silverstein KAT, Tang H, Rombauts S, Zhao PX, Zhou P, Barbe V, Bardou P, Bechner M, Bellec A, Berger A, Berges H, Bidwell S, Bisseling T, Choisne N, Couloux A, Denny R, Deshpande S, Dai X, Doyle JJ, Dudez A-M, Farmer AD, Fouteau S, Franken C, Gibelin C, Gish J, Goldstein S, Gonzalez AJ, Green PJ, Hallab A, Hartog M, Hua A, Humphray SJ, Jeong DH, Jing Yi, Jocker A, Kenton SM, Kim D-J, Klee K, Lai H, Lang C, Lin S, Macmil SL, Magdelenat G, Matthews L, McCorrison J, Monaghan EL, Mun J-H, Najar FZ, Nicholson C, Noirot C, Bleness MO, 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 B-B, 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, Denarie J, Dixon RA, May GD, Schwartz DC, Rogers J, Quetier F, Town CD, Roe BA.
Nature. 2011 Nov 16;480(7378):520-4. doi: 10.1038/nature10625. PMID: 22089132
 

Decoding the genome of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor smallholder farmers in Asia and Africa. 
Varshney RK, Chen W, Li Y, Bharti AK, Saxena RK, Schlueter JA, Donoghue MTA, Azam S, Fan G, Whaley AM, Farmer AD, Sheridan J, Iwata A, Tuetja R, Penmetsa RV, Wu W, Upadhyaya HD, Yang S-P, Shah T, Saxena KB, Todd Michael, McCombie WR, Yang B, Zhang G, Yang H, Jun W, Spillane C, Cook DR, May GD, Xu X, Jackson SA.
Nature Biotechnology. Epub 2011 Nov 6.
 

Interaction of an anticancer peptide fragment of azurin with p53 and its isolated domains studied by atomic force spectroscopy.
Bizzarri AR, Santini S, Coppari E, Bucciantini M, Di Agostino S, Yamada T, Beattie CW, Cannistraro S. 
Int J Nanomedicine. 2011;6:3011-9. Epub 2011 Nov 24. PubMed PMID: 22162658; PubMed Central PMCID: PMC3230568.
 

A cell penetrating peptide derived from azurin inhibits angiogenesis and tumor growth by inhibiting phosphorylation of VEGFR-2, FAK and Akt.
Mehta RR, Yamada T, Taylor BN, Christov K, King ML, Majumdar D, Lekmine F, Tiruppathi C, Shilkaitis A, Bratescu L, Green A, Beattie CW, Das Gupta TK. 
Angiogenesis. 2011 Sep;14(3):355-69. Epub 2011 Jun 11. PubMed PMID: 21667138.
 

Preclinical pharmacokinetics, metabolism, and toxicity of azurin-p28 (NSC745104) a peptide inhibitor of p53 ubiquitination.
Jia L, Gorman GS, Coward LU, Noker PE, McCormick D, Horn TL, Harder JB, Muzzio M, Prabhakar B, Ganesh B, Das Gupta TK, Beattie CW.
Cancer Chemother Pharmacol. 2011 Aug;68(2):513-24. Epub 2010 Nov 18. PubMed PMID: 21085965.
 

Whole-genome nucleotide diversity, recombination, and linkage disequilibrium in the model legume Medicago truncatula.
Branca A, Paape TD, Zhou P, Briskine R, Farmer AD, Mudge J, Bharti AK, Woodward JE, May GD, Gentzbittel L, Ben C, Denny R, Sadowsky MJ, Ronfort J, Bataillon T, Young ND, Tiffin P. 
Proc Natl Acad Sci U S A. 2011 Sep 26. [Epub ahead of print]   PMID: 21949378.
 

An ontology of fungal subcellular traits.
Kumar TK, Crow JA, Wennblom TJ, Abril M, Letcher PM, Blackwell M, Roberson RW, McLaughlin DJ.
Am J Bot 2011 Sep;98(9):1504-10. PMID: 21875969
 

A high-resolution comparative map of porcine chromosome 4 (SSC4).
Ma JG, Chang TC, Yasue H, Farmer AD, Crow JA, Eyer K, Hiraiwa H, Shimogiri T, Meyers SN, Beever JE, Schook LB, Retzel EF, Beattie CW, Liu WS. 
Anim Genet. 2011 Aug:42(4):440-444. PMID 21749428.
 

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 May 25. doi: 10.1111/j.1467-7652.2011.00625.x. PubMed PMID: 21615673.
 

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 May 12. PubMed PMID: 21565938.
 

Carrier testing for severe childhood recessive diseases by next-generation sequencing.
Bell CJ, Dinwiddie DL, Miller NA, Hateley SL, Ganusova EE, Mudge J, Langley RJ, Zhang L, Lee CC, Schilkey FD, Sheth V, Woodward JE, Peckham HE, Schroth GP, Kim RW, Kingsmore SF.
Sci Transl Med. 2011 Jan 12;3(65):65ra4.  PubMed PMID: 21228398.
 

New carrier screening test and fetal genome discovery could impact preconception, prenatal genetic counseling.
Diagnostic Testing and Technology Report.
 

Development and use of genic molecular markers (GMMs) for construction of a transcript map of chickpea (Cicer arietinum L.).
Gujaria N, Kumar A, Dauthal P, Dubey A, Hiremath P, Bhanu Prakash A, Farmer A, Bhide M, Shah T, Gaur PM, Upadhyaya HD, Bhatia S, Cook DR, May GD, Varshney RK.
Theor Appl Genet. 2011 May;122(8):1577-89. PubMed PMID: 21384113.
 

Analysis of BAC-end sequences (BESs) and development of BES-SSR markers for genetic mapping and hybrid purity assessment in pigeonpea (Cajanus spp.).
Bohra A, Dubey A, Saxena RK, Penmetsa RV, Poornima K, Kumar N, Farmer AD, Srivani G, Upadhyaya HD, Gothalwal R, Ramesh S, Singh D, Saxena K, Kishor PK, Singh NK, Town CD, May GD, Cook DR, Varshney RK.
BMC Plant Biol. 2011 Mar 29;11(1):56. PubMed PMID: 21447154; PubMed Central PMCID: PMC3079640.
 

Meiosis-specific gene discovery in plants: RNA-Seq applied to isolated Arabidopsis male meiocytes
Chen C, Farmer AD, Langley RJ, Mudge J, Crow JA, May GD, Huntley J, Smith AG, Retzel EF. 
BMC Plant Biol. 2010 Dec 17;10:280. PubMed PMID: 21167045. 
 

The expansion of the PRAME gene family in Eutheria.
Chang TC, Yang Y, Yasue H, Bharti AK, Retzel EF, Liu WS.
PLoS One. 2011 Feb 10;6(2):e16867. PubMed PMID: 21347312.


ZNF280BY and ZNF280AY: autosome derived Y chromosome gene families in Bovidae
.
Yang Y, Chang TC, Yasue H, Bharti AK, Retzel EF, Liu WS.
BMC Genomics. 2011 Jan 7;12:13. PubMed PMID: 21214936.
 

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. PubMed PMID: 21217801.


Silencing of soybean seed storage proteins results in a rebalanced protein composition preserving seed protein content without major collateral changes in the metabolome and transcriptome.
Schmidt MA, Barbazuk WB, Sandford M, May G, Song Z, Zhou W, Nikolau BJ, Herman EM.
Plant Physiol. 2011 May;156(1):330-45. Epub 2011 Mar 10.

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