ArticleInternational journal of genomics2015
De Novo Assembly of the Pea (Pisum sativum L.) Nodule Transcriptome.
Article in International journal of genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- RNA-Seq-based transcriptomics reveals differential gene expression between two Pisum sativum subspecies and uncovers their molecular marker profiles.BMC genomics · 2025Article
- A variable gene family encoding nodule-specific cysteine-rich peptides in pea (Frontiers in plant science · 2022Article
- Genomics Associated Interventions for Heat Stress Tolerance in Cool Season Adapted Grain Legumes.International journal of molecular sciences · 2021Review
- Omics resources and omics-enabled approaches for achieving high productivity and improved quality in pea (Pisum sativum L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Review
- Symbiotic Regulatory Genes Controlling Nodule Development inPlants (Basel, Switzerland) · 2020Review
- Transcriptome Analysis of Alternative Splicing Events Induced by Arbuscular Mycorrhizal Fungi (Plants (Basel, Switzerland) · 2020Article
- Article
- Receptor-Like Kinase LYK9 in Pisum sativum L. Is the CERK1-Like Receptor that Controls Both Plant Immunity and AM Symbiosis Development.International journal of molecular sciences · 2017Article
- De Novo Assembly, Annotation, and Characterization of Root Transcriptomes of Three Caladium Cultivars with a Focus on Necrotrophic Pathogen Resistance/Defense-Related Genes.International journal of molecular sciences · 2017Article
- Massive Analysis of cDNA Ends (MACE) for transcript-based marker design in pea (Genomics data · 2017Article
- Selection Signatures in the First Exon of Paralogous Receptor Kinase Genes from theFrontiers in plant science · 2017Article
- Pea Marker Database (PMD) - A new online database combining known pea (Pisum sativum L.) gene-based markers.PloS one · 2017Article
- A Combined Comparative Transcriptomic, Metabolomic, and Anatomical Analyses of Two Key Domestication Traits: Pod Dehiscence and Seed Dormancy in Pea (Frontiers in plant science · 2017Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The large size and complexity of the garden pea (Pisum sativum L.) genome hamper its sequencing and the discovery of pea gene resources. Although transcriptome sequencing provides extensive information about expressed genes, some tissue-specific transcripts can only be identified from particular organs under appropriate conditions. In this study, we performed RNA sequencing of polyadenylated transcripts from young pea nodules and root tips on an Illumina GAIIx system, followed by de novo transcriptome assembly using the Trinity program. We obtained more than 58,000 and 37,000 contigs from "Nodules" and "Root Tips" assemblies, respectively. The quality of the assemblies was assessed by comparison with pea expressed sequence tags and transcriptome sequencing project data available from NCBI website. The "Nodules" assembly was compared with the "Root Tips" assembly and with pea transcriptome sequencing data from projects indicating tissue specificity. As a result, approximately 13,000 nodule-specific contigs were found and annotated by alignment to known plant protein-coding sequences and by Gene Ontology searching. Of these, 581 sequences were found to possess full CDSs and could thus be considered as novel nodule-specific transcripts of pea. The information about pea nodule-specific gene sequences can be applied for gene-based markers creation, polymorphism studies, and real-time PCR.
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Registered trials
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