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Microsatellite Flanking Sequences (microsatellite + flanking_sequence)

Distribution by Scientific Domains
Life Sciences100%

Selected Abstracts

Across the Southern Alps by river capture?

MOLECULAR ECOLOGY, Issue 10 2000
Freshwater fish phylogeography in South Island, New Zealand
Abstract We used DNA analysis of galaxiid fish to test a hypothesis of localized headwater capture in South Island, New Zealand. The restricted western, but widespread eastern, distributions of three nonmigratory freshwater fish species suggest that part of the east-flowing Waiau River has been captured by the west-flowing Buller River. However, mitochondrial control region (Kimura 2-parameter distance = 4.1,5.4%) and microsatellite flanking sequences do not support a relationship between Waiau (N = 4 fish sequences) and western populations (N = 8) of Galaxias vulgaris. Instead, the point of capture is probably to the north-east, perhaps the Nelson lakes region. Phylogenetic analysis indicates that western populations, along with populations in the north-east (N = 18), represent a previously unidentified monophyletic Evolutionarily Significant Unit, possibly a cryptic species. We suggest a general caveat for zoogeographic conclusions based on distributional data alone. [source]

Development and optimization of sequence-tagged microsatellite site markers to detect genetic diversity within Colletotrichum capsici, a causal agent of chilli pepper anthracnose disease

MOLECULAR ECOLOGY RESOURCES, Issue 4 2009
N. P. RANATHUNGE
Abstract Genomic libraries enriched for microsatellites from Colletotrichum capsici, one of the major causal agents of anthracnose disease in chilli pepper (Capsicum spp.), were developed using a modified hybridization procedure. Twenty-seven robust primer pairs were designed from microsatellite flanking sequences and were characterized using 52 isolates from three countries India, Sri Lanka and Thailand. Highest gene diversity of 0.857 was observed at the CCSSR1 with up to 18 alleles among all the isolates whereas the differentiation ranged from 0.05 to 0.45. The sequence-tagged microsatellite site markers developed in this study will be useful for genetic analyses of C. capsici populations. [source]

Isolation of polymorphic microsatellite loci in Plantago major and P. intermedia

MOLECULAR ECOLOGY RESOURCES, Issue 3 2001
J. Squirrell
Abstract Plantago major and P. intermedia are two closely related inbreeding species. The isolation of polymorphic codominant microsatellite markers will provide valuable tools to investigate the reproductive isolation and the evolution of the two species. The isolation of microsatellite loci was achieved using a membrane enrichment method. Primers were designed to microsatellite flanking sequences and were analysed using fluorescent labels. Results indicated that nine out of the 10 loci amplified in both species, and that all the loci were polymorphic. The amplification of the loci was tested in a variety of Plantago species and was shown to be limited. [source]

Putative in silico mapping of DNA sequences to livestock genome maps using SSLP flanking sequences

ANIMAL GENETICS, Issue 1 2003
C. R. Farber
Summary In this study, an in silico approach was developed to identify homologies existing between livestock microsatellite flanking sequences and GenBank nucleotide sequences. Initially, 1955 bovine, 1570 porcine and 1121 chicken microsatellites were downloaded and the flanking sequences were compared with the nr and dbEST databases of GenBank. A total of 74 bovine, 44 porcine and 37 chicken microsatellite flanking sequences passed our criteria and had at least one significant match to human genomic sequence, genes/expressed sequence tags (ESTs) or both. GenBank annotation and BLAT searches of the UCSC human genome assembly revealed that 38 bovine, 13 porcine and 17 chicken microsatellite flanking sequences were highly similar to known human genes. Map locations were available for 67 bovine, 44 porcine and 21 chicken microsatellite flanking sequences, providing useful links in the comparative maps of humans and livestock. In support of our approach, 112 alignments with both microsatellite and match mapping information were located in the expected chromosomal regions based on previously reported syntenic relationships. The development of this in silico mapping approach has significantly increased the number of genes and EST sequences anchored to the bovine, porcine and chicken genome maps and the number of links in various human,livestock comparative maps. [source]