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De novo assembly, gene annotation, and simple sequence repeat marker development using Illumina paired-end transcriptome sequences in the pearl oyster Pinctada maxima.

Deng Y, Lei Q, Tian Q, Xie S, Du X, Li J, Wang L, Xiong Y.

Biosci Biotechnol Biochem. 2014;78(10):1685-92. doi: 10.1080/09168451.2014.936351. Epub 2014 Jul 22.


De novo assembly, gene annotation and marker development using Illumina paired-end transcriptome sequences in celery (Apium graveolens L.).

Fu N, Wang Q, Shen HL.

PLoS One. 2013;8(2):e57686. doi: 10.1371/journal.pone.0057686. Epub 2013 Feb 28.


Transcriptome analysis of the roots at early and late seedling stages using Illumina paired-end sequencing and development of EST-SSR markers in radish.

Wang S, Wang X, He Q, Liu X, Xu W, Li L, Gao J, Wang F.

Plant Cell Rep. 2012 Aug;31(8):1437-47. doi: 10.1007/s00299-012-1259-3. Epub 2012 Apr 4.


Transcriptome sequencing of mung bean (Vigna radiate L.) genes and the identification of EST-SSR markers.

Chen H, Wang L, Wang S, Liu C, Blair MW, Cheng X.

PLoS One. 2015 Apr 1;10(4):e0120273. doi: 10.1371/journal.pone.0120273. eCollection 2015.


In silico whole-genome EST analysis reveals 2322 novel microsatellites for the silver-lipped pearl oyster, Pinctada maxima.

Jones DB, Zenger KR, Jerry DR.

Mar Genomics. 2011 Dec;4(4):287-90. doi: 10.1016/j.margen.2011.06.007. Epub 2011 Aug 15.


De novo sequencing analysis of the Rosa roxburghii fruit transcriptome reveals putative ascorbate biosynthetic genes and EST-SSR markers.

Yan X, Zhang X, Lu M, He Y, An H.

Gene. 2015 Apr 25;561(1):54-62. doi: 10.1016/j.gene.2015.02.054. Epub 2015 Feb 19.


De novo assembly of transcriptome sequencing in Caragana korshinskii Kom. and characterization of EST-SSR markers.

Long Y, Wang Y, Wu S, Wang J, Tian X, Pei X.

PLoS One. 2015 Jan 28;10(1):e0115805. doi: 10.1371/journal.pone.0115805. eCollection 2015.


De Novo Transcriptome Assembly of the Chinese Swamp Buffalo by RNA Sequencing and SSR Marker Discovery.

Deng T, Pang C, Lu X, Zhu P, Duan A, Tan Z, Huang J, Li H, Chen M, Liang X.

PLoS One. 2016 Jan 14;11(1):e0147132. doi: 10.1371/journal.pone.0147132. eCollection 2016.


De novo assembly and characterization of root transcriptome using Illumina paired-end sequencing and development of cSSR markers in sweet potato (Ipomoea batatas).

Wang Z, Fang B, Chen J, Zhang X, Luo Z, Huang L, Chen X, Li Y.

BMC Genomics. 2010 Dec 24;11:726. doi: 10.1186/1471-2164-11-726.


Characterization of the sesame (Sesamum indicum L.) global transcriptome using Illumina paired-end sequencing and development of EST-SSR markers.

Wei W, Qi X, Wang L, Zhang Y, Hua W, Li D, Lv H, Zhang X.

BMC Genomics. 2011 Sep 19;12:451. doi: 10.1186/1471-2164-12-451.


De novo Assembly, Characterization of Immature Seed Transcriptome and Development of Genic-SSR Markers in Black Gram [Vigna mungo (L.) Hepper].

Souframanien J, Reddy KS.

PLoS One. 2015 Jun 4;10(6):e0128748. doi: 10.1371/journal.pone.0128748. eCollection 2015.


Transcriptome analysis of the pearl oyster (Pinctada fucata) hemocytes in response to Vibrio alginolyticus infection.

Wang Z, Wang B, Chen G, Jian J, Lu Y, Xu Y, Wu Z.

Gene. 2016 Jan 10;575(2 Pt 2):421-428. doi: 10.1016/j.gene.2015.09.014. Epub 2015 Sep 9.


Transcriptome sequencing of field pea and faba bean for discovery and validation of SSR genetic markers.

Kaur S, Pembleton LW, Cogan NO, Savin KW, Leonforte T, Paull J, Materne M, Forster JW.

BMC Genomics. 2012 Mar 20;13:104. doi: 10.1186/1471-2164-13-104.


Transcriptome analysis of Houttuynia cordata Thunb. by Illumina paired-end RNA sequencing and SSR marker discovery.

Wei L, Li S, Liu S, He A, Wang D, Wang J, Tang Y, Wu X.

PLoS One. 2014 Jan 2;9(1):e84105. doi: 10.1371/journal.pone.0084105. eCollection 2014.


Transcriptome de novo assembly sequencing and analysis of the toxic dinoflagellate Alexandrium catenella using the Illumina platform.

Zhang S, Sui Z, Chang L, Kang K, Ma J, Kong F, Zhou W, Wang J, Guo L, Geng H, Zhong J, Ma Q.

Gene. 2014 Mar 10;537(2):285-93. doi: 10.1016/j.gene.2013.12.041. Epub 2014 Jan 15.


Development of Gene-Based SSR Markers in Rice Bean (Vigna umbellata L.) Based on Transcriptome Data.

Chen H, Chen X, Tian J, Yang Y, Liu Z, Hao X, Wang L, Wang S, Liang J, Zhang L, Yin F, Cheng X.

PLoS One. 2016 Mar 7;11(3):e0151040. doi: 10.1371/journal.pone.0151040. eCollection 2016.


Next-generation sequencing of the Chrysanthemum nankingense (Asteraceae) transcriptome permits large-scale unigene assembly and SSR marker discovery.

Wang H, Jiang J, Chen S, Qi X, Peng H, Li P, Song A, Guan Z, Fang W, Liao Y, Chen F.

PLoS One. 2013 Apr 23;8(4):e62293. doi: 10.1371/journal.pone.0062293. Print 2013.


Transcriptome sequencing and characterization of Japanese scallop Patinopecten yessoensis from different shell color lines.

Ding J, Zhao L, Chang Y, Zhao W, Du Z, Hao Z.

PLoS One. 2015 Feb 13;10(2):e0116406. doi: 10.1371/journal.pone.0116406. eCollection 2015.

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