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Items: 30

1.

Genome-wide identification of histone methylation (H3K9me2) and acetylation (H4K12ac) marks in two ecotypes of switchgrass (Panicum virgatum L.).

Ayyappan V, Sripathi VR, Kalavacharla VK, Saha MC, Thimmapuram J, Bhide KP, Fiedler E.

BMC Genomics. 2019 Aug 22;20(1):667. doi: 10.1186/s12864-019-6038-x.

2.

Analyses of methylomes of upland and lowland switchgrass (Panicum virgatum) ecotypes using MeDIP-seq and BS-seq.

Dworkin M, Xie S, Saha M, Thimmapuram J, Kalavacharla VK.

BMC Genomics. 2017 Nov 7;18(1):851. doi: 10.1186/s12864-017-4218-0.

3.

Marker-Assisted Molecular Profiling, Deletion Mutant Analysis, and RNA-Seq Reveal a Disease Resistance Cluster Associated with Uromyces appendiculatus Infection in Common Bean Phaseolus vulgaris L.

Todd AR, Donofrio N, Sripathi VR, McClean PE, Lee RK, Pastor-Corrales M, Kalavacharla VK.

Int J Mol Sci. 2017 May 23;18(6). pii: E1109. doi: 10.3390/ijms18061109.

4.

Characterization and Expression Analysis of Common Bean Histone Deacetylase 6 during Development and Cold Stress Response.

Hayford RK, Ligaba-Osena A, Subramani M, Brown A, Melmaiee K, Hossain K, Kalavacharla VK.

Int J Genomics. 2017;2017:2502691. doi: 10.1155/2017/2502691. Epub 2017 Jan 3.

5.

Comparative analysis of the root transcriptomes of cultivated sweetpotato (Ipomoea batatas [L.] Lam) and its wild ancestor (Ipomoea trifida [Kunth] G. Don).

Ponniah SK, Thimmapuram J, Bhide K, Kalavacharla VK, Manoharan M.

BMC Plant Biol. 2017 Jan 13;17(1):9. doi: 10.1186/s12870-016-0950-x.

6.

Comparative transcriptome profiling of upland (VS16) and lowland (AP13) ecotypes of switchgrass.

Ayyappan V, Saha MC, Thimmapuram J, Sripathi VR, Bhide KP, Fiedler E, Hayford RK, Kalavacharla VK.

Plant Cell Rep. 2017 Jan;36(1):129-150. doi: 10.1007/s00299-016-2065-0. Epub 2016 Nov 3.

7.

Multi-Generational Kinship, Multiple Mating, and Flexible Modes of Parental Care in a Breeding Population of the Veery (Catharus fuscescens), a Trans-Hemispheric Migratory Songbird.

Halley MR, Heckscher CM, Kalavacharla V.

PLoS One. 2016 Jun 22;11(6):e0157051. doi: 10.1371/journal.pone.0157051. eCollection 2016.

8.

Analyses of Methylomes Derived from Meso-American Common Bean (Phaseolus vulgaris L.) Using MeDIP-Seq and Whole Genome Sodium Bisulfite-Sequencing.

Crampton M, Sripathi VR, Hossain K, Kalavacharla V.

Front Plant Sci. 2016 Apr 26;7:447. doi: 10.3389/fpls.2016.00447. eCollection 2016.

9.

Quantification and Gene Expression Analysis of Histone Deacetylases in Common Bean during Rust Fungal Inoculation.

Melmaiee K, Kalavacharla VK, Brown A, Todd A, Thurston Y, Elavarthi S.

Int J Genomics. 2015;2015:153243. doi: 10.1155/2015/153243. Epub 2015 Dec 28.

10.

Genome-Wide Profiling of Histone Modifications (H3K9me2 and H4K12ac) and Gene Expression in Rust (Uromyces appendiculatus) Inoculated Common Bean (Phaseolus vulgaris L.).

Ayyappan V, Kalavacharla V, Thimmapuram J, Bhide KP, Sripathi VR, Smolinski TG, Manoharan M, Thurston Y, Todd A, Kingham B.

PLoS One. 2015 Jul 13;10(7):e0132176. doi: 10.1371/journal.pone.0132176. eCollection 2015.

11.

Influence of Etching Protocol and Silane Treatment with a Universal Adhesive on Lithium Disilicate Bond Strength.

Kalavacharla VK, Lawson NC, Ramp LC, Burgess JO.

Oper Dent. 2015 Jul-Aug;40(4):372-8. doi: 10.2341/14-116-L. Epub 2014 Dec 23.

PMID:
25535784
12.
13.

RNA-Seq reveals infection-related global gene changes in Phytophthora phaseoli, the causal agent of lima bean downy mildew.

Kunjeti SG, Evans TA, Marsh AG, Gregory NF, Kunjeti S, Meyers BC, Kalavacharla VS, Donofrio NM.

Mol Plant Pathol. 2012 Jun;13(5):454-66. doi: 10.1111/j.1364-3703.2011.00761.x. Epub 2011 Nov 24.

14.

A Bayesian model for gene family evolution.

Liu L, Yu L, Kalavacharla V, Liu Z.

BMC Bioinformatics. 2011 Nov 1;12:426. doi: 10.1186/1471-2105-12-426.

15.

Identification and analysis of common bean (Phaseolus vulgaris L.) transcriptomes by massively parallel pyrosequencing.

Kalavacharla V, Liu Z, Meyers BC, Thimmapuram J, Melmaiee K.

BMC Plant Biol. 2011 Oct 11;11:135. doi: 10.1186/1471-2229-11-135.

16.

High-resolution radiation hybrid map of wheat chromosome 1D.

Kalavacharla V, Hossain K, Gu Y, Riera-Lizarazu O, Vales MI, Bhamidimarri S, Gonzalez-Hernandez JL, Maan SS, Kianian SF.

Genetics. 2006 Jun;173(2):1089-99. Epub 2006 Apr 19.

17.

A chromosome bin map of 16,000 expressed sequence tag loci and distribution of genes among the three genomes of polyploid wheat.

Qi LL, Echalier B, Chao S, Lazo GR, Butler GE, Anderson OD, Akhunov ED, Dvorák J, Linkiewicz AM, Ratnasiri A, Dubcovsky J, Bermudez-Kandianis CE, Greene RA, Kantety R, La Rota CM, Munkvold JD, Sorrells SF, Sorrells ME, Dilbirligi M, Sidhu D, Erayman M, Randhawa HS, Sandhu D, Bondareva SN, Gill KS, Mahmoud AA, Ma XF, Miftahudin, Gustafson JP, Conley EJ, Nduati V, Gonzalez-Hernandez JL, Anderson JA, Peng JH, Lapitan NL, Hossain KG, Kalavacharla V, Kianian SF, Pathan MS, Zhang DS, Nguyen HT, Choi DW, Fenton RD, Close TJ, McGuire PE, Qualset CO, Gill BS.

Genetics. 2004 Oct;168(2):701-12.

18.

A chromosome bin map of 2148 expressed sequence tag loci of wheat homoeologous group 7.

Hossain KG, Kalavacharla V, Lazo GR, Hegstad J, Wentz MJ, Kianian PM, Simons K, Gehlhar S, Rust JL, Syamala RR, Obeori K, Bhamidimarri S, Karunadharma P, Chao S, Anderson OD, Qi LL, Echalier B, Gill BS, Linkiewicz AM, Ratnasiri A, Dubcovsky J, Akhunov ED, Dvorák J, Miftahudin, Ross K, Gustafson JP, Radhawa HS, Dilbirligi M, Gill KS, Peng JH, Lapitan NL, Greene RA, Bermudez-Kandianis CE, Sorrells ME, Feril O, Pathan MS, Nguyen HT, Gonzalez-Hernandez JL, Conley EJ, Anderson JA, Choi DW, Fenton D, Close TJ, McGuire PE, Qualset CO, Kianian SF.

Genetics. 2004 Oct;168(2):687-99.

19.

Deletion mapping of homoeologous group 6-specific wheat expressed sequence tags.

Randhawa HS, Dilbirligi M, Sidhu D, Erayman M, Sandhu D, Bondareva S, Chao S, Lazo GR, Anderson OD, Miftahudin, Gustafson JP, Echalier B, Qi LL, Gill BS, Akhunov ED, Dvorák J, Linkiewicz AM, Ratnasiri A, Dubcovsky J, Bermudez-Kandianis CE, Greene RA, Sorrells ME, Conley EJ, Anderson JA, Peng JH, Lapitan NL, Hossain KG, Kalavacharla V, Kianian SF, Pathan MS, Nguyen HT, Endo TR, Close TJ, McGuire PE, Qualset CO, Gill KS.

Genetics. 2004 Oct;168(2):677-86.

20.

A 2500-locus bin map of wheat homoeologous group 5 provides insights on gene distribution and colinearity with rice.

Linkiewicz AM, Qi LL, Gill BS, Ratnasiri A, Echalier B, Chao S, Lazo GR, Hummel DD, Anderson OD, Akhunov ED, Dvorák J, Pathan MS, Nguyen HT, Peng JH, Lapitan NL, Miftahudin, Gustafson JP, La Rota CM, Sorrells ME, Hossain KG, Kalavacharla V, Kianian SF, Sandhu D, Bondareva SN, Gill KS, Conley EJ, Anderson JA, Fenton RD, Close TJ, McGuire PE, Qualset CO, Dubcovsky J.

Genetics. 2004 Oct;168(2):665-76.

21.

Analysis of expressed sequence tag loci on wheat chromosome group 4.

Miftahudin, Ross K, Ma XF, Mahmoud AA, Layton J, Milla MA, Chikmawati T, Ramalingam J, Feril O, Pathan MS, Momirovic GS, Kim S, Chema K, Fang P, Haule L, Struxness H, Birkes J, Yaghoubian C, Skinner R, McAllister J, Nguyen V, Qi LL, Echalier B, Gill BS, Linkiewicz AM, Dubcovsky J, Akhunov ED, Dvorák J, Dilbirligi M, Gill KS, Peng JH, Lapitan NL, Bermudez-Kandianis CE, Sorrells ME, Hossain KG, Kalavacharla V, Kianian SF, Lazo GR, Chao S, Anderson OD, Gonzalez-Hernandez J, Conley EJ, Anderson JA, Choi DW, Fenton RD, Close TJ, McGuire PE, Qualset CO, Nguyen HT, Gustafson JP.

Genetics. 2004 Oct;168(2):651-63.

22.

Group 3 chromosome bin maps of wheat and their relationship to rice chromosome 1.

Munkvold JD, Greene RA, Bermudez-Kandianis CE, La Rota CM, Edwards H, Sorrells SF, Dake T, Benscher D, Kantety R, Linkiewicz AM, Dubcovsky J, Akhunov ED, Dvorák J, Miftahudin, Gustafson JP, Pathan MS, Nguyen HT, Matthews DE, Chao S, Lazo GR, Hummel DD, Anderson OD, Anderson JA, Gonzalez-Hernandez JL, Peng JH, Lapitan N, Qi LL, Echalier B, Gill BS, Hossain KG, Kalavacharla V, Kianian SF, Sandhu D, Erayman M, Gill KS, McGuire PE, Qualset CO, Sorrells ME.

Genetics. 2004 Oct;168(2):639-50.

23.

A 2600-locus chromosome bin map of wheat homoeologous group 2 reveals interstitial gene-rich islands and colinearity with rice.

Conley EJ, Nduati V, Gonzalez-Hernandez JL, Mesfin A, Trudeau-Spanjers M, Chao S, Lazo GR, Hummel DD, Anderson OD, Qi LL, Gill BS, Echalier B, Linkiewicz AM, Dubcovsky J, Akhunov ED, Dvorák J, Peng JH, Lapitan NL, Pathan MS, Nguyen HT, Ma XF, Miftahudin, Gustafson JP, Greene RA, Sorrells ME, Hossain KG, Kalavacharla V, Kianian SF, Sidhu D, Dilbirligi M, Gill KS, Choi DW, Fenton RD, Close TJ, McGuire PE, Qualset CO, Anderson JA.

Genetics. 2004 Oct;168(2):625-37.

24.

Chromosome bin map of expressed sequence tags in homoeologous group 1 of hexaploid wheat and homoeology with rice and Arabidopsis.

Peng JH, Zadeh H, Lazo GR, Gustafson JP, Chao S, Anderson OD, Qi LL, Echalier B, Gill BS, Dilbirligi M, Sandhu D, Gill KS, Greene RA, Sorrells ME, Akhunov ED, Dvorák J, Linkiewicz AM, Dubcovsky J, Hossain KG, Kalavacharla V, Kianian SF, Mahmoud AA, Miftahudin, Conley EJ, Anderson JA, Pathan MS, Nguyen HT, McGuire PE, Qualset CO, Lapitan NL.

Genetics. 2004 Oct;168(2):609-23.

25.

Development of an expressed sequence tag (EST) resource for wheat (Triticum aestivum L.): EST generation, unigene analysis, probe selection and bioinformatics for a 16,000-locus bin-delineated map.

Lazo GR, Chao S, Hummel DD, Edwards H, Crossman CC, Lui N, Matthews DE, Carollo VL, Hane DL, You FM, Butler GE, Miller RE, Close TJ, Peng JH, Lapitan NL, Gustafson JP, Qi LL, Echalier B, Gill BS, Dilbirligi M, Randhawa HS, Gill KS, Greene RA, Sorrells ME, Akhunov ED, Dvorák J, Linkiewicz AM, Dubcovsky J, Hossain KG, Kalavacharla V, Kianian SF, Mahmoud AA, Miftahudin, Ma XF, Conley EJ, Anderson JA, Pathan MS, Nguyen HT, McGuire PE, Qualset CO, Anderson OD.

Genetics. 2004 Oct;168(2):585-93.

26.

Radiation hybrid mapping of the species cytoplasm-specific (scsae) gene in wheat.

Hossain KG, Riera-Lizarazu O, Kalavacharla V, Vales MI, Maan SS, Kianian SF.

Genetics. 2004 Sep;168(1):415-23.

27.

Molecular cytogenetic characterization of an alloplasmic durum wheat line with a portion of chromosome 1D of Triticum aestivum carrying the scs(ae) gene.

Hossain KG, Riera-Lizarazu O, Kalavacharla V, Vales MI, Rust JL, Maan SS, Kianian SF.

Genome. 2004 Feb;47(1):206-14.

PMID:
15060617
28.

Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates.

Akhunov ED, Akhunova AR, Linkiewicz AM, Dubcovsky J, Hummel D, Lazo G, Chao S, Anderson OD, David J, Qi L, Echalier B, Gill BS, Miftahudin, Gustafson JP, La Rota M, Sorrells ME, Zhang D, Nguyen HT, Kalavacharla V, Hossain K, Kianian SF, Peng J, Lapitan NL, Wennerlind EJ, Nduati V, Anderson JA, Sidhu D, Gill KS, McGuire PE, Qualset CO, Dvorak J.

Proc Natl Acad Sci U S A. 2003 Sep 16;100(19):10836-41. Epub 2003 Sep 5. Erratum in: Proc Natl Acad Sci U S A. 2003 Nov 25;100(24):14511.

29.

Comparative DNA sequence analysis of wheat and rice genomes.

Sorrells ME, La Rota M, Bermudez-Kandianis CE, Greene RA, Kantety R, Munkvold JD, Miftahudin, Mahmoud A, Ma X, Gustafson PJ, Qi LL, Echalier B, Gill BS, Matthews DE, Lazo GR, Chao S, Anderson OD, Edwards H, Linkiewicz AM, Dubcovsky J, Akhunov ED, Dvorak J, Zhang D, Nguyen HT, Peng J, Lapitan NL, Gonzalez-Hernandez JL, Anderson JA, Hossain K, Kalavacharla V, Kianian SF, Choi DW, Close TJ, Dilbirligi M, Gill KS, Steber C, Walker-Simmons MK, McGuire PE, Qualset CO.

Genome Res. 2003 Aug;13(8):1818-27.

30.

The organization and rate of evolution of wheat genomes are correlated with recombination rates along chromosome arms.

Akhunov ED, Goodyear AW, Geng S, Qi LL, Echalier B, Gill BS, Miftahudin, Gustafson JP, Lazo G, Chao S, Anderson OD, Linkiewicz AM, Dubcovsky J, La Rota M, Sorrells ME, Zhang D, Nguyen HT, Kalavacharla V, Hossain K, Kianian SF, Peng J, Lapitan NL, Gonzalez-Hernandez JL, Anderson JA, Choi DW, Close TJ, Dilbirligi M, Gill KS, Walker-Simmons MK, Steber C, McGuire PE, Qualset CO, Dvorak J.

Genome Res. 2003 May;13(5):753-63. Epub 2003 Apr 14.

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