ArticlePloS one2017
Development of EST-SSR markers in flowering Chinese cabbage (Brassica campestris L. ssp. chinensis var. utilis Tsen et Lee) based on de novo transcriptomic assemblies.
Article in PloS one, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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21 citing papers in PubMed.
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- Development of simple sequence repeat markers for sugarcane from data mining of expressed sequence tags.Frontiers in plant science · 2023Article
- SSR marker based analysis for identification and of genetic diversity of non-heading Chinese cabbage varieties.Frontiers in plant science · 2023Article
- Genome-wide identification and development of InDel markers in tobacco (Physiology and molecular biology of plants : an international journal of functional plant biology · 2022Article
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- Comprehensive transcriptome analysis reveals heat-responsive genes in flowering Chinese cabbage (Frontiers in plant science · 2022Article
- Developing a new genic SSR primer database in faba bean (Vicia faba L.).Journal of applied genetics · 2021Article
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- Functional Annotation of a Full-Length Transcriptome and Identification of Genes Associated with Flower Development inPlants (Basel, Switzerland) · 2021Article
- Identification and Analysis of Small Interfering RNAs Associated With Heat Stress in Flowering Chinese Cabbage Using High-Throughput Sequencing.Frontiers in genetics · 2021Article
- Development of EST-SSR markers and association mapping with floral traits in Syringa oblata.BMC plant biology · 2020Article
- Single-molecule long-read sequencing of the full-length transcriptome of Rhododendron lapponicum L.Scientific reports · 2020Article
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- Transcriptome Sequencing and Development of Novel Genic SSR Markers FromFrontiers in genetics · 2020Article
- An extended KASP-SNP resource for molecular breeding in Chinese cabbage(Brassica rapa L. ssp. pekinensis).PloS one · 2020Article
- Article
- Identification of conserved and novel miRNAs responsive to heat stress in flowering Chinese cabbage using high-throughput sequencing.Scientific reports · 2019Article
- Characterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapa.BMC genomics · 2019Article
- Article
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8 authors.
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Abstract
Flowering Chinese cabbage is one of the most important vegetable crops in southern China. Genetic improvement of various agronomic traits in this crop is underway to meet high market demand in the region, but the progress is hampered by limited number of molecular markers available in this crop. This study aimed to develop EST-SSR markers from transcriptome sequences generated by next-generation sequencing. RNA-seq of eight cabbage samples identified 48,975 unigenes. Of these unigenes, 23,267 were annotated in 56 gene ontology (GO) categories, 6,033 were mapped to 131 KEGG pathways, and 7,825 were assigned to clusters of orthologous groups (COGs). From the unigenes, 8,165 EST-SSR loci were identified and 98.57% of them were 1-3 nucleotide repeats with 14.32%, 41.08% and 43.17% of mono-, di- and tri-nucleotide repeats, respectively. Fifty-eight types of motifs were identified with A/T, AG/CT, AT/AT, AC/GT, AAG/CTT and AGG/CCT the most abundant. The lengths of repeated nucleotide sequences in all SSR loci ranged from 12 to 60 bp, with most (88.51%) under 20 bp. Among 170 primer pairs were randomly selected from a total of 4,912 SSR primers we designed, 48 yielded unambiguously polymorphic bands with high reproducibility. Cluster analysis using 48 SSRs classified 34 flowering Chinese cabbage cultivars into three groups. A large number of EST-SSR markers identified in this study will facilitate marker-assisted selection in the breeding programs of flowering Chinese cabbage.
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