ArticleBMC research notes2014
De novo assembly and characterization of the transcriptome in the desiccation-tolerant moss Syntrichia caninervis.
Article in BMC research notes, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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30 citing papers in PubMed.
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- Outstanding Ultra-Low Freezing Tolerance in Moss Species: Insights From Recovery Ability.Plant-environment interactions (Hoboken, N.J.) · 2025Article
- A simple, highly efficientaBIOTECH · 2024Article
- Transcriptome Profiles RevealsPlants (Basel, Switzerland) · 2024Article
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- Genome-Wide Characterization and Expression Analysis of Transcription Factor Families in Desert MossInternational journal of molecular sciences · 2023Article
- Transcriptome Reveals the Molecular Mechanism of theInternational journal of molecular sciences · 2023Article
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- Transcriptional profiling analysis providing insights into desiccation tolerance mechanisms of the desert mossFrontiers in plant science · 2023Article
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- Pseudocrossidium replicatum (Taylor) R.H. Zander is a fully desiccation-tolerant moss that expresses an inducible molecular mechanism in response to severe abiotic stress.Plant molecular biology · 2021Article
- Systems biology of resurrection plants.Cellular and molecular life sciences : CMLS · 2021Review
- Propagation of desert moss Syntrichia caninervis in peat pellet: a method for rapidly obtaining large numbers of cloned gametophytes.Plant methods · 2021Article
- Review
- Functional Aspects of Early Light-Induced Protein (ELIP) Genes from the Desiccation-Tolerant MossInternational journal of molecular sciences · 2020Article
- Article
- Genome of the tropical plant Marchantia inflexa: implications for sex chromosome evolution and dehydration tolerance.Scientific reports · 2019Article
- Article
- Identification, Classification, and Functional Analysis ofInternational journal of molecular sciences · 2018Article
- Article
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5 authors.
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Abstract
backgroundSyntrichia caninervis is a desiccation-tolerant moss and the dominant bryophyte of the Biological Soil Crusts (BSCs) found in the Mojave and Gurbantunggut deserts. Next generation high throughput sequencing technologies offer an efficient and economic choice for characterizing non-model organism transcriptomes with little or no prior molecular information available.
resultsIn this study, we employed next generation, high-throughput, Illumina RNA-Seq to analyze the poly-(A) + mRNA from hydrated, dehydrating and desiccated S. caninervis gametophores. Approximately 58.0 million paired-end short reads were obtained and 92,240 unigenes were assembled with an average size of 493 bp, N50 value of 662 bp and a total size of 45.48 Mbp. Sequence similarity searches against five public databases (NR, Swiss-Prot, COSMOSS, KEGG and COG) found 54,125 unigenes (58.7%) with significant similarity to an existing sequence (E-value ≤ 1e-5) and could be annotated. Gene Ontology (GO) annotation assigned 24,183 unigenes to the three GO terms: Biological Process, Cellular Component or Molecular Function. GO comparison between P. patens and S. caninervis demonstrated similar sequence enrichment across all three GO categories. 29,370 deduced polypeptide sequences were assigned Pfam domain information and categorized into 4,212 Pfam domains/families. Using the PlantTFDB, 778 unigenes were predicted to be involved in the regulation of transcription and were classified into 49 transcription factor families. Annotated unigenes were mapped to the KEGG pathways and further annotated using MapMan. Comparative genomics revealed that 44% of protein families are shared in common by S. caninervis, P. patens and Arabidopsis thaliana and that 80% are shared by both moss species.
conclusionsThis study is one of the first comprehensive transcriptome analyses of the moss S. caninervis. Our data extends our knowledge of bryophyte transcriptomes, provides an insight to plants adapted to the arid regions of central Asia, and continues the development of S. caninervis as a model for understanding the molecular aspects of desiccation-tolerance.
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