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Transcriptome analysis in switchgrass discloses ecotype difference in photosynthetic efficiency.

Serba DD, Uppalapati SR, Krom N, Mukherjee S, Tang Y, Mysore KS, Saha MC.

BMC Genomics. 2016 Dec 16;17(1):1040.


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.


Diversity and population structure of northern switchgrass as revealed through exome capture sequencing.

Evans J, Crisovan E, Barry K, Daum C, Jenkins J, Kunde-Ramamoorthy G, Nandety A, Ngan CY, Vaillancourt B, Wei CL, Schmutz J, Kaeppler SM, Casler MD, Buell CR.

Plant J. 2015 Nov;84(4):800-15. doi: 10.1111/tpj.13041.


Nucleotide polymorphism and copy number variant detection using exome capture and next-generation sequencing in the polyploid grass Panicum virgatum.

Evans J, Kim J, Childs KL, Vaillancourt B, Crisovan E, Nandety A, Gerhardt DJ, Richmond TA, Jeddeloh JA, Kaeppler SM, Casler MD, Buell CR.

Plant J. 2014 Sep;79(6):993-1008. doi: 10.1111/tpj.12601. Epub 2014 Aug 11.


SNP discovery with EST and NextGen sequencing in switchgrass (Panicum virgatum L.).

Ersoz ES, Wright MH, Pangilinan JL, Sheehan MJ, Tobias C, Casler MD, Buckler ES, Costich DE.

PLoS One. 2012;7(9):e44112. doi: 10.1371/journal.pone.0044112. Epub 2012 Sep 25.


Natural variation in genes potentially involved in plant architecture and adaptation in switchgrass (Panicum virgatum L.).

Bahri BA, Daverdin G, Xu X, Cheng JF, Barry KW, Brummer EC, Devos KM.

BMC Evol Biol. 2018 Jun 14;18(1):91. doi: 10.1186/s12862-018-1193-2.


Switchgrass (Panicum virgatum L.) Genotypes Differ between Coastal Sites and Inland Road Corridors in the Northeastern US.

Ecker G, Zalapa J, Auer C.

PLoS One. 2015 Jun 30;10(6):e0130414. doi: 10.1371/journal.pone.0130414. eCollection 2015.


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.


Hierarchical classification of switchgrass genotypes using SSR and chloroplast sequences: ecotypes, ploidies, gene pools, and cultivars.

Zalapa JE, Price DL, Kaeppler SM, Tobias CM, Okada M, Casler MD.

Theor Appl Genet. 2011 Mar;122(4):805-17. doi: 10.1007/s00122-010-1488-1. Epub 2010 Nov 23.


Population genomic variation reveals roles of history, adaptation and ploidy in switchgrass.

Grabowski PP, Morris GP, Casler MD, Borevitz JO.

Mol Ecol. 2014 Aug;23(16):4059-73. doi: 10.1111/mec.12845. Epub 2014 Jul 21.


Genetic diversity in tetraploid switchgrass revealed by AFLP marker polymorphisms.

Todd J, Wu YQ, Wang Z, Samuels T.

Genet Mol Res. 2011 Nov 29;10(4):2976-86. doi: 10.4238/2011.November.29.8.


Extensive Genetic Diversity is Present within North American Switchgrass Germplasm.

Evans J, Sanciangco MD, Lau KH, Crisovan E, Barry K, Daum C, Hundley H, Jenkins J, Kennedy M, Kunde-Ramamoorthy G, Vaillancourt B, Acharya A, Schmutz J, Saha M, Kaeppler SM, Brummer EC, Casler MD, Buell CR.

Plant Genome. 2018 Mar;11(1). doi: 10.3835/plantgenome2017.06.0055.


Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass.

Frazier TP, Palmer NA, Xie F, Tobias CM, Donze-Reiner TJ, Bombarely A, Childs KL, Shu S, Jenkins JW, Schmutz J, Zhang B, Sarath G, Zhao B.

BMC Genomics. 2016 Nov 8;17(1):892.


Chloroplast genome variation in upland and lowland switchgrass.

Young HA, Lanzatella CL, Sarath G, Tobias CM.

PLoS One. 2011;6(8):e23980. doi: 10.1371/journal.pone.0023980. Epub 2011 Aug 24.


De novo transcriptome assembly for the tropical grass Panicum maximum Jacq.

Toledo-Silva G, Cardoso-Silva CB, Jank L, Souza AP.

PLoS One. 2013 Jul 29;8(7):e70781. doi: 10.1371/journal.pone.0070781. Print 2013.


Accelerating the switchgrass (Panicum virgatum L.) breeding cycle using genomic selection approaches.

Lipka AE, Lu F, Cherney JH, Buckler ES, Casler MD, Costich DE.

PLoS One. 2014 Nov 12;9(11):e112227. doi: 10.1371/journal.pone.0112227. eCollection 2014.


Switchgrass genomic diversity, ploidy, and evolution: novel insights from a network-based SNP discovery protocol.

Lu F, Lipka AE, Glaubitz J, Elshire R, Cherney JH, Casler MD, Buckler ES, Costich DE.

PLoS Genet. 2013;9(1):e1003215. doi: 10.1371/journal.pgen.1003215. Epub 2013 Jan 17.


Elucidation and analyses of the regulatory networks of upland and lowland ecotypes of switchgrass in response to drought and salt stresses.

Zuo C, Tang Y, Fu H, Liu Y, Zhang X, Zhao B, Xu Y.

PLoS One. 2018 Sep 24;13(9):e0204426. doi: 10.1371/journal.pone.0204426. eCollection 2018.


Drought responsive gene expression regulatory divergence between upland and lowland ecotypes of a perennial C4 grass.

Lovell JT, Schwartz S, Lowry DB, Shakirov EV, Bonnette JE, Weng X, Wang M, Johnson J, Sreedasyam A, Plott C, Jenkins J, Schmutz J, Juenger TE.

Genome Res. 2016 Apr;26(4):510-8. doi: 10.1101/gr.198135.115. Epub 2016 Mar 7.


Transcriptome sequencing of two wild barley (Hordeum spontaneum L.) ecotypes differentially adapted to drought stress reveals ecotype-specific transcripts.

Bedada G, Westerbergh A, Müller T, Galkin E, Bdolach E, Moshelion M, Fridman E, Schmid KJ.

BMC Genomics. 2014 Nov 19;15:995. doi: 10.1186/1471-2164-15-995.

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