ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2007
The development of BAC-end sequence-based microsatellite markers and placement in the physical and genetic maps of soybean.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed.
- In Silico Approach for Characterization and Comparison of Repeats in the Genomes of Oil and Date Palms.Bioinformatics and biology insights · 2017Article
- Construction of high resolution genetic linkage maps to improve the soybean genome sequence assembly Glyma1.01.BMC genomics · 2016Article
- PineElm_SSRdb: a microsatellite marker database identified from genomic, chloroplast, mitochondrial and EST sequences of pineapple (Hereditas · 2016Article
- Analysis of BAC-end sequences in common bean (Phaseolus vulgaris L.) towards the development and characterization of long motifs SSRs.Plant molecular biology · 2014Article
- Article
- BAC-end sequences analysis provides first insights into coffee (Coffea canephora P.) genome composition and evolution.Plant molecular biology · 2013Article
- Determination of the genetic diversity of vegetable soybean [Glycine max (L.) Merr.] using EST-SSR markers.Journal of Zhejiang University. Science. B · 2013Article
- A genome-wide BAC end-sequence survey of sugarcane elucidates genome composition, and identifies BACs covering much of the euchromatin.Plant molecular biology · 2013Article
- Identification, characterization, and utilization of genome-wide simple sequence repeats to identify a QTL for acidity in apple.BMC genomics · 2012Article
- Chromosome arm-specific BAC end sequences permit comparative analysis of homoeologous chromosomes and genomes of polyploid wheat.BMC plant biology · 2012Article
- Exploiting BAC-end sequences for the mining, characterization and utility of new short sequences repeat (SSR) markers in Citrus.Molecular biology reports · 2012Article
- Recombination suppression at the dominant Rhg1/Rfs2 locus underlying soybean resistance to the cyst nematode.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2012Article
- Functional features of a single chromosome arm in wheat (1AL) determined from its structure.Functional & integrative genomics · 2012Article
- Characterizing the walnut genome through analyses of BAC end sequences.Plant molecular biology · 2012Article
- Bacterial artificial chromosome libraries of pulse crops: characteristics and applications.Journal of biomedicine & biotechnology · 2012Review
- Integration of physical and genetic maps in apple confirms whole-genome and segmental duplications in the apple genome.Journal of experimental botany · 2011Article
- Analysis of BAC-end sequences in rainbow trout: content characterization and assessment of synteny between trout and other fish genomes.BMC genomics · 2011Article
- Physical mapping and BAC-end sequence analysis provide initial insights into the flax (Linum usitatissimum L.) genome.BMC genomics · 2011Article
- SSR and EST-SSR-based genetic linkage map of cassava (Manihot esculenta Crantz).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2011Article
- Selection of a core set of RILs from Forrest x Williams 82 to develop a framework map in soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2011Article
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5 authors.
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Abstract
The composite map of soybean shared among Soybase, LIS and SoyGD (March 2006) contained 3,073 DNA markers in the "Locus" class. Among the markers were 1,019 class I microsatellite markers with 2-3 bp simple sequence repeats (SSRs) of >10 iterations (BARC-SSR markers). However, there were few class II SSRs (2-5 bp repeats with <10 iterations; mostly SIUC-Satt markers). The aims here were to increase the number of classes I and II SSR markers and to integrate bacterial artificial chromosome (BAC) clones onto the soybean physical map using the markers. Used was 10 Mb of BAC-end sequence (BES) derived from 13,473 reads from 7,050 clones constituting minimum tile path 2 of the soybean physical map ( http://www.soybeangenome.siu.edu ; SoyGD). Identified were 1,053 1-6 bp motif, repeat sequences, 333 from class I (>10 repeats) and 720 from class II (<10 repeats). Potential markers were shown on the MTP_SSR track at Gbrowse. Primers were designed as 20-24 bp oligomers that had Tm of 55 +/- 1 C that would generate 100-500 bp amplicons. About 853 useful primer pairs were established. Motifs were not randomly distributed with biases toward AT rich motifs. Strong biases against the GC motif and all tetra-nucleotide repeats were found. The markers discovered were useful. Among the first 135 targeted for use in genetic map improvement about 60% of class II markers and 75% of class I markers were polymorphic among on the parents of four recombinant inbred line (RIL) populations. Many of the BES-based SSRs were located on the soybean genetic map in regions with few BARC-SSR markers. Therefore, BES-based SSRs represent useful tools for genetic map development in soybean. New members of a consortium to map the markers in additional populations are invited.
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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.