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PMRD specifications

Information


Unique identifier OMICS_02827
Name PMRD
Alternative name Plant MicroRNA Database
Restrictions to use None
Maintained Yes

Publication for Plant MicroRNA Database

PMRD citations

 (24)
library_books

Integration of the Pokeweed miRNA and mRNA Transcriptomes Reveals Targeting of Jasmonic Acid Responsive Genes

2018
Front Plant Sci
PMCID: 5944317
PMID: 29774043
DOI: 10.3389/fpls.2018.00589

[…] , snRNA, and snoRNA) and mature miRNA sequences were annotated by mapping reads to the sugar beet genome (Dohm et al., ) and the plant miRNA database (Zhang et al., ; http://bioinformatics.cau.edu.cn/PMRD/). Mapping was performed with Bowtie software (v. 1.0.1; Langmead et al., ) and up to three mismatches were allowed in alignments. […]

library_books

Alternative miRNAs? Human sequences misidentified as plant miRNAs in plant studies and in human plasma

2018
F1000Res
PMCID: 5904727
PMID: 29744036
DOI: 10.5256/f1000research.15294.r31318

[…] A sequences were obtained from miRBase . Because certain plant sequences have been removed from miRBase because they have been identified as ncRNA degradation artifacts, the plant microRNA database ( PMRD) was consulted; however, repeated attempts to access the site were unsuccessful, so information was retrieved instead from miRMaid or miRNEST 2.0 . contains the relevant count data from the Ni […]

call_split

Plant miRNAs found in human circulating system provide evidences of cross kingdom RNAi

2017
BMC Genomics
PMCID: 5374554
PMID: 28361700
DOI: 10.1186/s12864-017-3502-3
call_split See protocol

[…] GCA_000001735.1, GCA_000005505.2, GCA_001305255.1, GCA_000210335.1 and GCA_000210335.1, which were downloaded from NCBI assembly. The plant miRNAs used for detection were collected from the database PMRD [].Fig. 2 The human plasma small RNA sequencing reads were aligned onto each of the plant genomes through Bowtie [] and the miRDeep2 package []. Whether the plant miRNAs presented in the sample w […]

library_books

Characterization of Dof Transcription Factors and Their Responses to Osmotic Stress in Poplar (Populus trichocarpa)

2017
PLoS One
PMCID: 5241002
PMID: 28095469
DOI: 10.1371/journal.pone.0170210

[…] PMRD (http://bioinformatics.cau.edu.cn/PMRD) was used to download the mature P. trichocarpa miRNA sequences. The Plant Small RNA Target Analysis Server (psRNA Target: http://plantgrn.noble.org/psRNATa […]

library_books

Molecular Mechanisms of Colistin Resistance in Klebsiella pneumoniae Causing Bacteremia from India—A First Report

2017
Front Microbiol
PMCID: 5220082
PMID: 28119670
DOI: 10.3389/fmicb.2016.02135

[…] of the blaOXA−48 like gene.For colistin resistance, RAST classified 11 genes involved in lipid A modification with L-Ara4N pathway. These included ugd, arnA_DH, arnA_FT, arnB, arnC, arnT, pmrJ, pmrL, pmrD, pmrM, and pmrG. In addition, 10 genes were classified under genes involved in Lipid A modifications. These include pagP,pagL, lpxO, phoQ, phoP, pmrA, pmrB, eptA, eptB, and yijP. Of these 21 gene […]

library_books

Validation of Suitable Reference Genes for Assessing Gene Expression of MicroRNAs in Lonicera japonica

2016
Front Plant Sci
PMCID: 4961011
PMID: 27507983
DOI: 10.3389/fpls.2016.01101

[…] was more suitable as the inner reference gene and was not affected by differences in breeding or plant organs. Additionally, secondary structures of u3868172 and u534122 precursors were predicted by PMRD, whose target genes could be investigated by available L. japonica transcriptome data in the future. Therefore, the group of miRNA reference genes in this study was validated not only as biomarke […]

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PMRD institution(s)
State Key Laboratory of Plant Physiology and Biochemistry and State Key Laboratory for Agricultural Biotechnology, College of Biological Sciences, China Agricultural University, Beijing, China

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