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Transcript profiling of Populus tomentosa genes in normal, tension, and opposite wood by RNA-seq.


ABSTRACT: BACKGROUND: Wood formation affects the chemical and physical properties of wood, and thus affects its utility as a building material or a feedstock for biofuels, pulp and paper. To obtain genome-wide insights on the transcriptome changes and regulatory networks in wood formation, we used high-throughput RNA sequencing to characterize cDNA libraries of mature xylem from tension wood (TW), opposite wood (OW), and normal wood (NW), in the industrial tree species Populus tomentosa. RESULTS: Our sequencing generated 140,978,316 (TW), 128,972,228 (OW), and 117,672,362 (NW) reads, corresponding to 10,127 (TW), 10,129 (OW), and 10,129 (NW) unique genes. Of these, 361 genes were differentially transcribed between TW and OW (log2FC???1 or???-1, FDR?

SUBMITTER: Chen J 

PROVIDER: S-EPMC4372042 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature

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Transcript profiling of Populus tomentosa genes in normal, tension, and opposite wood by RNA-seq.

Chen Jinhui J   Chen Beibei B   Zhang Deqiang D  

BMC genomics 20150310


<h4>Background</h4>Wood formation affects the chemical and physical properties of wood, and thus affects its utility as a building material or a feedstock for biofuels, pulp and paper. To obtain genome-wide insights on the transcriptome changes and regulatory networks in wood formation, we used high-throughput RNA sequencing to characterize cDNA libraries of mature xylem from tension wood (TW), opposite wood (OW), and normal wood (NW), in the industrial tree species Populus tomentosa.<h4>Results  ...[more]

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