NDLI: Catalog of Erycina pusilla miRNA and categorization of reproductive phase-related miRNAs and their target gene families

Content Provider	Springer Nature Link
Author	Lin, Choun Sea Chen, Jeremy J. W. Huang, Yao Ting Hsu, Chen Tran Lu, Hsiang Chia Chou, Ming Lun Chen, Li Chi Ou, Chia I Liao, Der Chih Yeh, Ysuan Yu Chang, Song Bing Shen, Su Chen Wu, Fu Huei Shih, Ming Che Chan, Ming Tsair
Copyright Year	2013
Abstract	The orchid Erycina pusilla has a short life cycle and relatively low chromosome number, making it a potential model plant for orchid functional genomics. To that end, small RNAs (sRNAs) from different developmental stages of different organs were sequenced. In this miRNA mix, 33 annotated miRNA families and 110 putative miRNA-targeted transcripts were identified in E. pusilla. Fifteen E. pusilla miRNA target genes were found to be similar to those in other species. There were putative novel miRNAs identified by 3 different strategies. The genomic sequences of the four miRNAs that were identified using rice genome as the reference can form the stem loop structure. The t0000354 miRNA, identified using rice genome sequences and a Phalaenopsis study, had a high read count. The target gene of this miRNA is MADS (unigene30603), which belongs to the AP3-PI subfamily. The most abundant miRNA was E. pusilla miR156 (epu-miR156), orthologs of which work to maintain the vegetative phase by repressing the expression of the SQUAMOSA promoter-binding-like (SPL) transcription factors. Fifteen genes in the E. pusilla SPL (EpSPL) family were identified, nine of which contained the putative epu-miR156 target site. Target genes of epu-miR172, also a key regulator of developmental changes in the APETALA2 (EpAP2) family, were identified. Experiments using 5′RLM-RACE demonstrated that the genes EpSPL1, 2, 3, 4, 7, 9, 10, 14 and EpAP2-9, -10, -11 were regulated by epu-miR156 and epu-miR172, respectively.
Starting Page	193
Ending Page	204
Page Count	12
File Format	PDF
ISSN	01674412
Journal	Plant Molecular Biology
Volume Number	82
Issue Number	1-2
e-ISSN	15735028
Language	English
Publisher	Springer Netherlands
Publisher Date	2013-04-11
Publisher Place	Dordrecht
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Orchid Micro RNA Transcriptome Phase transition sRNA library AP2 family SPL family Plant Sciences Biochemistry Plant Pathology
Content Type	Text
Resource Type	Article
Subject	Genetics Plant Science Medicine Agronomy and Crop Science

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