ArticlePloS one2014
Large-scale SNP discovery through RNA sequencing and SNP genotyping by targeted enrichment sequencing in cassava (Manihot esculenta Crantz).
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 50 citations in OpenAlex.
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- Editing of the starch branching enzyme gene SBE2 generates high-amylose storage roots in cassava.Plant molecular biology · 2022Article
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- A population genomics appraisal suggests independent dispersals for bitter and sweet manioc in Brazilian Amazonia.Evolutionary applications · 2020Article
- Technological Innovations for Improving Cassava Production in Sub-Saharan Africa.Frontiers in genetics · 2020Review
- Genome-Wide Association Studies of 11 Agronomic Traits in Cassava (Frontiers in plant science · 2018Article
- Target enrichment sequencing in cultivated peanut (Arachis hypogaea L.) using probes designed from transcript sequences.Molecular genetics and genomics : MGG · 2017Article
- Report on the development of putative functional SSR and SNP markers in passion fruits.BMC research notes · 2017Article
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- Exploiting the great potential of Sequence Capture data by a new tool, SUPER-CAP.DNA research : an international journal for rapid publication of reports on genes and genomes · 2017Article
- From Genomes to GENE-omes: Exome Sequencing Concept and Applications in Crop Improvement.Frontiers in plant science · 2017Review
- Deep Assessment of Genomic Diversity in Cassava for Herbicide Tolerance and Starch Biosynthesis.Computational and structural biotechnology journal · 2017Article
- In Silico identification and annotation of non-coding RNAs by RNA-seq and De Novo assembly of the transcriptome of Tomato Fruits.PloS one · 2017Article
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- Exploring Genetic Diversity in Plants Using High-Throughput Sequencing Techniques.Current genomics · 2016Article
Corrections and comments
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Authors and funding
10 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cassava (Manihot esculenta Crantz) is one of the most important crop species being the main source of dietary energy in several countries. Marker-assisted selection has become an essential tool in plant breeding. Single nucleotide polymorphism (SNP) discovery via transcriptome sequencing is an attractive strategy for genome complexity reduction in organisms with large genomes. We sequenced the transcriptome of 16 cassava accessions using the Illumina HiSeq platform and identified 675,559 EST-derived SNP markers. A subset of those markers was subsequently genotyped by capture-based targeted enrichment sequencing in 100 F1 progeny segregating for starch viscosity phenotypes. A total of 2,110 non-redundant SNP markers were used to construct a genetic map. This map encompasses 1,785 cM and consists of 19 linkage groups. A major quantitative trait locus (QTL) controlling starch pasting properties was identified and shown to coincide with the QTL previously reported for this trait. With a high-density SNP-based linkage map presented here, we also uncovered a novel QTL associated with starch pasting time on LG 10.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.