+ Site Statistics
References:
54,258,434
Abstracts:
29,560,870
PMIDs:
28,072,757
+ Search Articles
+ Subscribe to Site Feeds
Most Shared
PDF Full Text
+ PDF Full Text
Request PDF Full Text
+ Follow Us
Follow on Facebook
Follow on Twitter
Follow on LinkedIn
+ Translate
+ Recently Requested

Identification of miRNAs and their targets through high-throughput sequencing and degradome analysis in male and female Asparagus officinalis



Identification of miRNAs and their targets through high-throughput sequencing and degradome analysis in male and female Asparagus officinalis



Bmc Plant Biology 16: 80



MicroRNAs (miRNAs), a class of non-coding small RNAs (sRNAs), regulate various biological processes. Although miRNAs have been identified and characterized in several plant species, miRNAs in Asparagus officinalis have not been reported. As a dioecious plant with homomorphic sex chromosomes, asparagus is regarded as an important model system for studying mechanisms of plant sex determination. Two independent sRNA libraries from male and female asparagus plants were sequenced with Illumina sequencing, thereby generating 4.13 and 5.88 million final clean reads, respectively. Both libraries predominantly contained 24-nt sRNAs, followed by 21-nt sRNAs. Further analysis identified 154 conserved miRNAs, which belong to 26 families, and 39 novel miRNA candidates seemed to be specific to asparagus. Comparative profiling revealed that 63 miRNAs exhibited significant differential expression between male and female plants, which was confirmed by real-time quantitative PCR analysis. Among them, 37 miRNAs were significantly up-regulated in the female library, whereas the others were preferentially expressed in the male library. Furthermore, 40 target mRNAs representing 44 conserved and seven novel miRNAs were identified in asparagus through high-throughput degradome sequencing. Functional annotation showed that these target mRNAs were involved in a wide range of developmental and metabolic processes. We identified a large set of conserved and specific miRNAs and compared their expression levels between male and female asparagus plants. Several asparagus miRNAs, which belong to the miR159, miR167, and miR172 families involved in reproductive organ development, were differentially expressed between male and female plants, as well as during flower development. Consistently, several predicted targets of asparagus miRNAs were associated with floral organ development. These findings suggest the potential roles of miRNAs in sex determination and reproductive developmental processes in asparagus.

(PDF emailed within 0-6 h: $19.90)

Accession: 058039975

Download citation: RISBibTeXText

PMID: 27068118

DOI: 10.1186/s12870-016-0770-z


Related references

Identification of miRNAs and their targets by high-throughput sequencing and degradome analysis in cytoplasmic male-sterile line NJCMS1A and its maintainer NJCMS1B of soybean. Bmc Genomics 17: 24, 2016

Identification of miRNAs and their targets using high-throughput sequencing and degradome analysis in cytoplasmic male-sterile and its maintainer fertile lines of Brassica juncea. Bmc Genomics 14: 9, 2013

Identification of miRNAs and their targets from Brassica napus by high-throughput sequencing and degradome analysis. Bmc Genomics 13: 421, 2013

Identification of miRNAs and Their Targets in Cotton Inoculated with Verticillium dahliae by High-Throughput Sequencing and Degradome Analysis. International Journal of Molecular Sciences 16(7): 14749-14768, 2016

High-throughput sequencing and degradome analysis reveal altered expression of miRNAs and their targets in a male-sterile cybrid pummelo (Citrus grandis). Bmc Genomics 17: 591, 2017

Identification of Blueberry miRNAs and Their Targets Based on High-Throughput Sequencing and Degradome Analyses. International Journal of Molecular Sciences 19(4), 2018

Comparison of miRNAs and Their Targets in Seed Development between Two Maize Inbred Lines by High-Throughput Sequencing and Degradome Analysis. Plos One 11(7): E0159810, 2017

High-throughput sequencing and degradome analysis identify miRNAs and their targets involved in fruit senescence of Fragaria ananassa. Plos One 8(8): E70959, 2014

Uncovering leaf rust responsive miRNAs in wheat (Triticum aestivum L.) using high-throughput sequencing and prediction of their targets through degradome analysis. Planta 245(1): 161-182, 2016

Identification of miRNAs and their target genes in peach (Prunus persica L.) using high-throughput sequencing and degradome analysis. Plos One 8(11): E79090, 2014

Identification of TaxusmicroRNAs and their targets with high-throughput sequencing and degradome analysis. 2012

Identification of Taxus microRNAs and their targets with high-throughput sequencing and degradome analysis. Physiologia Plantarum 146(4): 388-403, 2013

Identification of grapevine microRNAs and their targets using high-throughput sequencing and degradome analysis. Plant Journal 62(6): 960-976, 2010

Identification of novel and conserved miRNAs involved in pollen development in Brassica campestris ssp. chinensis by high-throughput sequencing and degradome analysis. Bmc Genomics 15: 146, 2014

Identification of Nicotiana benthamiana microRNAs and their targets using high throughput sequencing and degradome analysis. Bmc Genomics 16: 1025, 2016