ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2005
Using cDNA and genomic sequences as tools to develop SNP strategies in cassava (Manihot esculenta Crantz).
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 72 citations in OpenAlex.
- Advances in Genetic Analysis and Breeding of Cassava (Plants (Basel, Switzerland) · 2022Review
- Understanding population structure and detection of QTLs for curding-related traits in Indian cauliflower by genotyping by sequencing analysis.Functional & integrative genomics · 2021Article
- Enriching Genomic Resources and Marker Development from Transcript Sequences ofInternational journal of genomics · 2017Article
- Molecular marker development from transcript sequences and germplasm evaluation for cultivated peanut (Arachis hypogaea L.).Molecular genetics and genomics : MGG · 2016Article
- Proteomics Profiling Reveals Carbohydrate Metabolic Enzymes and 14-3-3 Proteins Play Important Roles for Starch Accumulation during Cassava Root Tuberization.Scientific reports · 2016Article
- Conventional breeding, marker-assisted selection, genomic selection and inbreeding in clonally propagated crops: a case study for cassava.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2015Review
- Using RNA-Seq to assemble a rose transcriptome with more than 13,000 full-length expressed genes and to develop the WagRhSNP 68k Axiom SNP array for rose (Rosa L.).Frontiers in plant science · 2015Article
- Article
- Genome-wide discovery and information resource development of DNA polymorphisms in cassava.PloS one · 2013Article
- Generation, functional analysis and utility of Citrus grandis EST from a flower-derived cDNA library.Molecular biology reports · 2012Article
- Identification, validation and high-throughput genotyping of transcribed gene SNPs in cassava.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2012Article
- Gene-based microsatellites for cassava (Manihot esculenta Crantz): prevalence, polymorphisms, and cross-taxa utility.BMC plant biology · 2009Article
- BAC end sequences corresponding to the B4 resistance gene cluster in common bean: a resource for markers and synteny analyses.Molecular genetics and genomics : MGG · 2008Article
- Identification, validation and survey of a single nucleotide polymorphism (SNP) associated with pungency in Capsicum spp.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2007Article
- SNP discovery via 454 transcriptome sequencing.The Plant journal : for cell and molecular biology · 2007Article
- Validation of in silico-predicted genic SNPs in white clover (Trifolium repens L.), an outbreeding allopolyploid species.Molecular genetics and genomics : MGG · 2007Article
- QualitySNP: a pipeline for detecting single nucleotide polymorphisms and insertions/deletions in EST data from diploid and polyploid species.BMC bioinformatics · 2006Article
- Gene-associated single nucleotide polymorphism discovery in perennial ryegrass (Lolium perenne L.).Molecular genetics and genomics : MGG · 2006Article
Corrections and comments
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Authors and funding
6 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single nucleotide polymorphisms (SNP) are the most abundant type of DNA polymorphism found in animal and plant genomes. They provide an important new source of molecular markers that are useful in genetic mapping, map-based positional cloning, quantitative trait locus mapping and the assessment of genetic distances between individuals. Very little is known on the frequency of SNPs in cassava. We have exploited the recently-developed collection of cassava expressed sequence tags (ESTs) to detect SNPs in the five cultivars of cassava used to generate the sequences. The frequency of intra-cultivar and inter-cultivar SNPs after analysis of 111 contigs was one polymorphism per 905 and one per 1,032 bp, respectively; totaling 1 each 509 bp. We have obtained further information on the frequency of SNPs in six cassava cultivars by analysis of 33 amplicons obtained from 3' EST and BAC end sequences. Overall, about 11 kb of DNA sequence was obtained for each cultivar. A total of 186 SNPs (136 and 50 from ESTs and BAC ends, respectively) were identified. Among these, 146 were intra-cultivar polymorphisms, while 80 were inter-cultivar polymorphisms. Thus the total frequency of SNPs was one per 62 bp. This information will help to develop new strategies for EST mapping as well as their association with phenotypic characteristics.
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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.