deep annotation of populus trichocarpa micrornas from diverse tissue sets深注释的杨树trichocarpa microrna来自不同组织的集.pdfVIP

Deep Annotation of Populus trichocarpa microRNAs from Diverse Tissue Sets 1 2 3 1 Joshua R. Puzey , Amir Karger , Michael Axtell , Elena M. Kramer * 1 Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America, 2 Research Computing, Division of Science, Faculty of Arts and Sciences, Harvard University, Cambridge, Massachusetts, United States of America, 3 Department of Biology, Pennsylvania State University, University Park, Pennsylvania, United States of America Abstract Populus trichocarpa is an important woody model organism whose entire genome has been sequenced. This resource has facilitated the annotation of microRNAs (miRNAs), which are short non-coding RNAs with critical regulatory functions. However, despite their developmental importance, P. trichocarpa miRNAs have yet to be annotated from numerous important tissues. Here we significantly expand the breadth of tissue sampling and sequencing depth for miRNA annotation in P. trichocarpa using high-throughput smallRNA (sRNA) sequencing. miRNA annotation was performed using three individual next-generation sRNA sequencing runs from separate leaves, xylem, and mechanically treated xylem, as well as a fourth run using a pooled sample containing vegetative apices, male flowers, female flowers, female apical buds, and male apical and lateral buds. A total of 276 miRNAs were identified from these datasets, including 155 previously unannotated miRNAs, most of which are P. trichocarpa specific. Importantly, we identified several xylem-enriched miRNAs predicted to target genes known to be important in secondary growth, including the critical reaction wood enzyme xyloglucan endo- transglycosyla