Development, characterization, and comparative analysis of polymorphism at common bean SSR loci isolated from genic and genomic sources.

Abstract:

:Microsatellites or SSRs (single sequence repeats) have been used to construct and integrate genetic maps in crop species, including Phaseolus vulgaris. In the present study, 3 cDNA libraries generated by the Bean EST project (http://lgm.esalq.usp.br/BEST/), comprising a unigene collection of 3126 sequences and a genomic microsatellite-enriched library, were analyzed for the presence of SSRs. A total of 219 expressed sequence tags (ESTs) were found to carry 240 SSRs (named EST-SSR), whereas 714 genomic sequences contained 471 SSRs (named genomic-SSR). A subset of 80 SSRs, 40 EST-SSRs, and 40 genomic-SSRs were evaluated for molecular polymorphism in 23 genotypes of cultivated beans from the Mesoamerican and Andean genetic pools, including Brazilian cultivars and 2 related species. Of the common bean genotypes, 31 EST-SSR loci were polymorphic, yielding 2-12 alleles as compared with 26 polymorphic genomic-SSRs, accounting for 2-7 alleles. Cluster analysis from data using both genic and genomic-SSR revealed a clear separation between Andean and Mesoamerican beans. The usefulness of these loci for distinguishing bean genotypes and genetic mapping is discussed.

journal_name

Genome

journal_title

Genome

authors

Hanai LR,de Campos T,Camargo LE,Benchimol LL,de Souza AP,Melotto M,Carbonell SA,Chioratto AF,Consoli L,Formighieri EF,Siqueira MV,Tsai SM,Vieira ML

doi

10.1139/g07-007

subject

Has Abstract

pub_date

2007-03-01 00:00:00

pages

266-77

issue

3

eissn

0831-2796

issn

1480-3321

pii

g07-007

journal_volume

50

pub_type

杂志文章

相关文献

GENOME文献大全
  • Genetic relationship among cultivated and wild grapevine accessions from Tunisia.

    abstract::We have used nuclear and chloroplast molecular markers to genotype cultivated and wild accessions of Vitis vinifera L. from Tunisia and assess their genetic relationships. Fifty-five distinct genotypes were identified among 80 cultivated accessions, including 18 genotypic groups containing between 2 and 5 accessions p...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g04-072

    authors: Snoussi H,Slimane MH,Ruiz-García L,Martínez-Zapater JM,Arroyo-García R

    更新日期:2004-12-01 00:00:00

  • Differential susceptibility of a few members of the nasuta-albomicans complex of Drosophila to paraquat-induced lethality and oxidative stress.

    abstract::The evolution of karyotypically stabilized short-lived (SL) and long-lived (LL) cytoraces in the laboratory have been established and validated through our previous lifespan studies. In the present investigation, we examined the possible reason(s) for the differential longevity among selected members of SL and LL cyto...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g11-049

    authors: Ranjini MS,Hosamani R,Muralidhara,Ramachandra NB

    更新日期:2011-10-01 00:00:00

  • Robertsonian chromosomal variation in the house musk shrew (Suncus murinus, Insectivora:Soricidae) and the colonization history of the species.

    abstract::A high-resolution G-banding technique was used to identify five metacentrics that characterize Suncus murinus from Sri Lanka. These metacentrics were shown to be the product of Robertsonian fusion of acrocentric chromosomes identical to those in the standard karyotype defined by M.B. Rogatcheva et al. Two of the metac...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g97-003

    authors: Rogatcheva MB,Borodin PM,Oda SI,Searle JB

    更新日期:1997-02-01 00:00:00

  • Study on correlation of signal molecule genes and their receptor-associated genes with rat liver regeneration.

    abstract::To investigate the effect of signal molecules and their receptor-associated genes on rat liver regeneration (LR) at the transcriptional level, the associated genes were originally obtained by retrieving the databases and related scientific publications; their expression profiles in rat LR were then checked using the R...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g09-022

    authors: Xu CS,Shao HY,Du B

    更新日期:2009-06-01 00:00:00

  • Polytene chromosome relationships of five species of the Anopheles dirus complex in Thailand.

    abstract::Photographic maps and rearrangements of each salivary gland polytene chromosome arm of Anopheles nemophilous (species F) and of An. dirus species A, B, C, and D of the Dirus group from natural populations in Thailand are presented. Structural conformation of heterokaryotypes and comparison of chromosome banding sequen...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g95-056

    authors: Poopittayasataporn A,Baimai V

    更新日期:1995-06-01 00:00:00

  • The Bo1-specific PCR marker AWW5L7 is predictive of boron tolerance status in a range of exotic durum and bread wheats.

    abstract::High soil boron (B) constitutes a major soil problem in many parts of the world, particularly in low-rainfall areas and land under irrigation. Low accumulation of B in the shoot or grain of cereal crops is correlated with the maintenance of biomass production and grain yield under high B conditions, suggesting that th...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/G08-084

    authors: Schnurbusch T,Langridge P,Sutton T

    更新日期:2008-12-01 00:00:00

  • Computers: the best friends a human genome ever had.

    abstract::Mapping and sequencing the human genome will generate large amounts of data, which must be sorted, analyzed, and stored for rapid retrieval to complete this enormous task. Computers and their software programs provide the most important tool to the molecular biologist today. A discussion of current capabilities and fu...

    journal_title:Genome

    pub_type: 杂志文章,评审

    doi:10.1139/g89-177

    authors: Kelly MJ

    更新日期:1989-01-01 00:00:00

  • DNA barcoding reveals CITES-listed species among Taiwanese government-seized chelonian specimens.

    abstract::Compared to traditional morphological identification, DNA barcoding-molecular identification based on sequencing of a segment of mitochondrial cytochrome c oxidase subunit I (COI)-provides a shortcut to authenticating chelonian identifications. Here, we selected 63 government-seized chelonian specimens deposited at Ta...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/gen-2017-0264

    authors: Chang CH,Dai WY,Chen TY,Lee AH,Hou HY,Liu SH,Jang-Liaw NH

    更新日期:2018-08-01 00:00:00

  • Gene expression patterns indicate that a high-fat-high-carbohydrate diet causes mitochondrial dysfunction in fish.

    abstract::Expensive and unsustainable fishmeal is increasingly being replaced with cheaper lipids and carbohydrates as sources of energy in aquaculture. Although it is known that the excess of lipids and carbohydrates has negative effects on nutrient utilization, growth, metabolic homeostasis, and health of fish, our current un...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/gen-2018-0159

    authors: Prisingkorn W,Jakovlić I,Yi SK,Deng FY,Zhao YH,Wang WM

    更新日期:2019-02-01 00:00:00

  • Isolation and characterization of polymorphic microsatellites in Cocos nucifera L.

    abstract::Microsatellites or simple sequence repeats (SSRs) were isolated from coconut (Cocos nucifera) and tested for polymorphism on restricted germplasm. Sequencing of 197 clones from a cv. Tagnanan Tall-enriched genomic library showed that 75% contained a microsatellite, of which 64% were dinucleotide (GA/CT, CA/GT and GC/C...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g98-170

    authors: Rivera R,Edwards KJ,Barker JH,Arnold GM,Ayad G,Hodgkin T,Karp A

    更新日期:1999-08-01 00:00:00

  • Spontaneous structural rearrangements in Solanum phureja Juz. et Buk. 2. Meiotic behaviour and identification of interchange chromosomes using primary trisomics.

    abstract::Meiosis was studied in two diploid (2n = 2x = 24) siblings of Solanum phureja Juz. et Buk. and in 11 disomic and 2 trisomic descendants. The diploid siblings carry the same heterozygous interchange and either one or two inversions. The frequency of quadrivalents at diakinesis/metaphase I in these clones was 0.56 and 0...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g95-017

    authors: Wagenvoort M

    更新日期:1995-02-01 00:00:00

  • Cytological and molecular characterization of a Triticum aestivum x Lophopyrum ponticum backcross derivative resistant to barley yellow dwarf.

    abstract::Barley yellow dwarf is the most damaging virus-caused disease in bread wheat (Triticum aestivum L.). A resistant line, SW335.1.2-13-11-1-5 (2n = 47), derived from a cross of T. aestivum x Lophopyrum ponticum was characterized by meiotic chromosome pairing, by in situ DNA hybridization and by expression of molecular ma...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g94-124

    authors: Zhong GY,McGuire PE,Qualset CO,Dvorák J

    更新日期:1994-10-01 00:00:00

  • A combined RFLP-SSR-AFLP map of tetraploid cotton based on a Gossypium hirsutum x Gossypium barbadense backcross population.

    abstract::An interspecific Gossypium hirsutum x Gossypium barbadense backcross population of 75 BC1 plants was evaluated for 1014 markers. The map consists of 888 loci, including 465 AFLPs, 229 SSRs, 192 RFLPs, and 2 morphological markers, ordered in 37 linkage groups that represent most if not all of the 26 chromosomes, altoge...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g03-050

    authors: Lacape JM,Nguyen TB,Thibivilliers S,Bojinov B,Courtois B,Cantrell RG,Burr B,Hau B

    更新日期:2003-08-01 00:00:00

  • Segmental chromosomal duplications harbouring group IV CONSTANS-like genes in cereals.

    abstract::Comparative mapping is an important component of map-based cloning in large-genome cereal species. We describe evidence of a segmental chromosomal duplication harbouring CONSTANS-like genes in barley that predates the divergence of the Oryzoideae (rice) and Pooideae (brachypodium, barley, wheat) clades, and discuss th...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g09-101

    authors: Cockram J,Howells RM,O'Sullivan DM

    更新日期:2010-03-01 00:00:00

  • An AFLP marker tightly linked to apomixis reveals hemizygosity in a portion of the apomixis-controlling locus in Paspalum simplex.

    abstract::A mapping population of Paspalum simplex segregating for apomixis (asexual reproduction through seeds) was screened with AFLPs to find apomixis-linked markers. Four AFLPs linked to apomixis in coupling phase were found. Three of them did not show recombinants among the 87 individuals of the mapping population, whereas...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g02-014

    authors: Labombarda P,Busti A,Caceres ME,Pupilli F,Arcioni S

    更新日期:2002-06-01 00:00:00

  • A spontaneous segmental deletion from chromosome arm 3DL enhances Fusarium head blight resistance in wheat.

    abstract::Much effort has been directed at identifying sources of resistance to Fusarium head blight (FHB) in wheat. We sought to identify molecular markers for what we hypothesized was a new major FHB resistance locus originating from the wheat cultivar 'Freedom' and introgressed into the susceptible wheat cultivar 'USU-Apogee...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/gen-2015-0088

    authors: Garvin DF,Porter H,Blankenheim ZJ,Chao S,Dill-Macky R

    更新日期:2015-11-01 00:00:00

  • Quantitative trait loci on barley (Hordeum vulgare L.) chromosome 7 associated with components of winterhardiness.

    abstract::Quantitative trait loci (QTL) controlling traits associated with winterhardiness in barley (field survival, LT50, growth habit, and crown fructan content) were mapped to chromosome 7 in a population of 100 F1-derived doubled haploid lines. The largest QTL effects for all traits were detected in a 21% recombination int...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g93-009

    authors: Hayes PM,Blake T,Chen TH,Tragoonrung S,Chen F,Pan A,Liu B

    更新日期:1993-02-01 00:00:00

  • Conversion of AFLP markers associated with FHB resistance in wheat into STS markers with an extension-AFLP method.

    abstract::Amplified fragment length polymorphism (AFLP) has proven a powerful tool for tagging genes or quantitative trait loci (QTLs) of interest in plants. However, conversion of AFLP markers into sequence-tagged site (STS) markers is technically challenging in wheat owing to the complicated nature of its genome. In this stud...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g04-022

    authors: Xu DH,Ban T

    更新日期:2004-08-01 00:00:00

  • Amphipod genome sizes: first estimates for Arctic species reveal genomic giants.

    abstract::The genome sizes of 8 species of amphipods collected from the Canadian Arctic were estimated by flow cytometry. Haploid genome sizes ranged from 2.94 +/- 0.04 pg DNA in Acanthostepheia malmgreni (Oedicerotidae) to 64.62 +/- 2.85 pg in Ampelisca macrocephala (Ampeliscidae). The value for Ampelisca macrocephala represen...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g06-155

    authors: Rees DJ,Dufresne F,Glémet H,Belzile C

    更新日期:2007-02-01 00:00:00

  • Can butterflies cope with city life? Butterfly diversity in a young megacity in southern China.

    abstract::During 30 years of unprecedented urbanization, plant diversity in Shenzhen, a young megacity in southern China, has increased dramatically. Although strongly associated with plant diversity, butterfly diversity generally declines with urbanization, but this has not been investigated in Shenzhen. Considering the speed ...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/gen-2015-0192

    authors: Sing KW,Dong H,Wang WZ,Wilson JJ

    更新日期:2016-09-01 00:00:00

  • Complete mitochondrial genome of Camponotus atrox (Hymenoptera: Formicidae): a new tRNA arrangement in Hymenoptera.

    abstract::We sequenced the complete mitochondrial (mt) genome of Camponotus atrox (Hymenoptera: Formicidae), which is only distributed in Korea. The genome was 16 540 bp in size and contained typical sets of genes (13 protein-coding genes, 22 tRNAs, and 2 rRNAs). The C. atrox A+T-rich region, at 1402 bp, was the longest of all ...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/gen-2015-0080

    authors: Kim MJ,Hong EJ,Kim I

    更新日期:2016-01-01 00:00:00

  • Genomic diversity and multiple origins of tetraploid (2n = 78, 80) Glycine tomentella.

    abstract::Among 15 wild perennial species of the genus Glycine Willd. subgenus Glycine, G. tomentella is exceptional. It is composed of four cytotypes (2n = 38, 40, 78, 80), is diverse in morphological features, and covers a wide geographical area. The objectives of this study were to uncover the genomic diversity in 78- and 80...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g94-063

    authors: Kollipara KP,Singh RJ,Hymowitz T

    更新日期:1994-06-01 00:00:00

  • Molecular differentiation of two sibling species of the black fly Simulium vittatum (Diptera: Simuliidae) based on random amplified polymorphic DNA.

    abstract::Larvae of the black fly morphospecies Simulium vittatum from Colorado, Montana, Nebraska, and New Hampshire were cytologically identified as either the IS-7 or the IIIL-1 cytospecies. DNA was PCR amplified from cytotyped larvae using eight 10-mer primers, labeled with 33P, and run on polyacrylamide gels. The entire da...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g03-144

    authors: Duncan GA,Adler PH,Pruess KP,Powers TO

    更新日期:2004-04-01 00:00:00

  • Prediction of novel isoforms of the mouse Mpv17l protein.

    abstract::The Mpv17l protein has two isoforms, M-LPL and M-LPS, which both regulate the production of reactive oxygen species (ROS) and protect against mitochondrial oxidative stress and apoptosis. M-LPL is ubiquitously expressed, while M-LPS is expressed mostly in the kidney of aged animals. We identified a variety of transcri...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g09-061

    authors: Magoulas C,Jasim A,Lopez de Heredia L

    更新日期:2009-11-01 00:00:00

  • AFLP targeting of the 1-cM region conferring the vrs1 gene for six-rowed spike in barley, Hordeum vulgare L.

    abstract::Spike morphology is a key characteristic in the study of barley domestication, yield, and use. Multiple alleles at the vrs1 locus control the development and fertility of the lateral spikelets of barley. We developed five amplified fragment length polymorphism (AFLP) markers tightly linked to the vrs1 locus using well...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g04-073

    authors: He C,Sayed-Tabatabaei BE,Komatsuda T

    更新日期:2004-12-01 00:00:00

  • EST sequencing and gene expression profiling of cultivated peanut (Arachis hypogaea L.).

    abstract::Peanut (Arachis hypogaea L.) is one of the most important oil crops in the world. However, biotechnological based improvement of peanut is far behind many other crops. It is critical and urgent to establish the biotechnological platform for peanut germplasm innovation. In this study, a peanut seed cDNA library was con...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g10-074

    authors: Bi YP,Liu W,Xia H,Su L,Zhao CZ,Wan SB,Wang XJ

    更新日期:2010-10-01 00:00:00

  • Development of a PCR-based allele-specific assay from an RFLP probe linked to resistance to cereal cyst nematode in wheat.

    abstract::The RFLP locus Xglk605 identified by the probe Tag605 maps to a proximal position on the long arm of wheat chromosome 2B about 7 cM away from a gene conditioning resistance to cereal cyst nematode in the wheat line AUS10894. The clone Tag605 was partially sequenced and the PCR primer set AWP1 was designed. The 292-bp ...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g96-100

    authors: Williams KJ,Fisher JM,Langridge P

    更新日期:1996-08-01 00:00:00

  • Genetic diversity of different apricot geographical groups determined by SSR markers.

    abstract::Forty apricot cultivars with different geographic origins belonging to the germplasm collections of St. Istvan University (Budapest, Hungary) and the Instituto Valenciano de Investigaciones Agrarias (IVIA) (Valencia, Spain) were studied by means of SSR markers. The aim of the study was to determine the genetic relatio...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g02-128

    authors: Romero C,Pedryc A,Muñoz V,Llácer G,Badenes ML

    更新日期:2003-04-01 00:00:00

  • A molecular genetic linkage map identifying the St and H subgenomes of Elymus (Poaceae: Triticeae) wheatgrass.

    abstract::Elymus L. is the largest and most complex genus in the Triticeae tribe of grasses with approximately 150 polyploid perennial species occurring worldwide. We report here the first genetic linkage map for Elymus. Backcross mapping populations were created by crossing caespitose Elymus wawawaiensis (EW) (Snake River whea...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g11-045

    authors: Mott IW,Larson SR,Jones TA,Robins JG,Jensen KB,Peel MD

    更新日期:2011-10-01 00:00:00

  • Molecular evolution of ribosomal intergenic spacers in Odontophrynus americanus 2n and 4n (Amphibia: Anura).

    abstract::Ribosomal intergenic spacers (IGSs) of Odontophrynus americanus 2n and 4n were cloned, restriction mapped, and partially sequenced. Three distinct regions, namely alpha, beta, and delta, were identified in the IGSs. The alpha and beta regions flanked the 28S and 18S rRNA genes, respectively, conserving an identical re...

    journal_title:Genome

    pub_type: 杂志文章

    doi:10.1139/g01-134

    authors: Alvares LE,Polanco C,Brison O,Coutinho LL,Ruiz IR

    更新日期:2002-02-01 00:00:00