Simple sequence repeat-based consensus linkage map of Bombyx mori

To determine genetic relationships among strains of silkworm, Bombyx mori L., 31 strains with different origins, number of generations per year, number of molts per generation, and morphological characters were studied using simple sequence repeat (SSR) markers. Twenty-six primer pairs flanking microsatellite sequences in the silkworm genome were assayed. All were polymorphic and unambiguously separated silkworm strains from each other. A total of 188 alleles were detected with a mean value of 7.2 alleles/locus (range 2–17). The average heterozygosity value for each SSR locus ranged from 0 to 0.60, and the highest one was 0.96 (Fl0516 in 4013). The mean polymorphism index content (PIC) was 0.66 (range 0.12–0.89). Unweighted pair group method with arithmetic means (UPGMA) cluster analysis of Nei's genetic distance grouped silkworm strains based on their origin. Seven major ecotypic silkworm groups were analyzed. Principal components analysis (PCA) for SSR data support their UPGMA clustering. The results indicated that SSR markers are an efficient tool for fingerprinting cultivars and conducting genetic-diversity studies in the silkworm.Key words: silkworm, Bombyx mori L., microsatellites, simple sequence repeat (SSR), genetic diversity.

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Genetic mapping of ascochyta blight resistance in chickpea (Cicer arietinum L.) using a simple sequence repeat linkage map

Genome ◽

10.1139/g06-137 ◽

2007 ◽

Vol 50 (1) ◽

pp. 26-34 ◽

Cited By ~ 70

Author(s):

B. Tar’an ◽

T.D. Warkentin ◽

A. Tullu ◽

A. Vandenberg

Keyword(s):

Linkage Map ◽

Cicer Arietinum ◽

Phenotypic Variation ◽

Simple Sequence Repeat ◽

Ascochyta Blight ◽

Ascochyta Rabiei ◽

Blight Resistance ◽

Sequence Repeat ◽

Cicer Arietinum L ◽

Simple Sequence

Ascochyta blight, caused by the fungus Ascochyta rabiei (Pass.) Lab., is one of the most devastating diseases of chickpea ( Cicer arietinum L.) worldwide. Research was conducted to map genetic factors for resistance to ascochyta blight using a linkage map constructed with 144 simple sequence repeat markers and 1 morphological marker (fc, flower colour). Stem cutting was used to vegetatively propagate 186 F2 plants derived from a cross between Cicer arietinum L. ‘ICCV96029’ and ‘CDC Frontier’. A total of 556 cutting-derived plants were evaluated for their reaction to ascochyta blight under controlled conditions. Disease reaction of the F1 and F2 plants demonstrated that the resistance was dominantly inherited. A Fain’s test based on the means and variances of the ascochyta blight reaction of the F3 families showed that a few genes were segregating in the population. Composite interval mapping identified 3 genomic regions that were associated with the reaction to ascochyta blight. One quantitative trait locus (QTL) on each of LG3, LG4, and LG6 accounted for 13%, 29%, and 12%, respectively, of the total estimated phenotypic variation for the reaction to ascochyta blight. Together, these loci controlled 56% of the total estimated phenotypic variation. The QTL on LG4 and LG6 were in common with the previously reported QTL for ascochyta blight resistance, whereas the QTL on LG3 was unique to the current population.

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The development of simple sequence repeat markers for Magnaporthe grisea and their integration into an established genetic linkage map

Fungal Genetics and Biology ◽

10.1016/j.fgb.2003.08.001 ◽

2003 ◽

Vol 40 (3) ◽

pp. 207-214 ◽

Cited By ~ 53

Author(s):

Claudia Kaye ◽

Joëlle Milazzo ◽

Sophie Rozenfeld ◽

Marc-Henri Lebrun ◽

Didier Tharreau

Keyword(s):

Linkage Map ◽

Simple Sequence Repeat ◽

Genetic Linkage ◽

Magnaporthe Grisea ◽

Genetic Linkage Map ◽

Sequence Repeat ◽

Simple Sequence Repeat Markers ◽

Simple Sequence

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CONSTRUCTION OF A GENETIC LINKAGE MAP FOR PORPHYRA HAITANENSIS (BANGIALES, RHODOPHYTA) BASED ON SEQUENCE-RELATED AMPLIFIED POLYMORPHISM AND SIMPLE SEQUENCE REPEAT MARKERS1

Journal of Phycology ◽

10.1111/j.1529-8817.2010.00855.x ◽

2010 ◽

Vol 46 (4) ◽

pp. 780-787 ◽

Cited By ~ 16

Author(s):

Xie Chaotian ◽

Chen Changsheng ◽

Xu Yan ◽

Ji Dehua

Keyword(s):

Linkage Map ◽

Simple Sequence Repeat ◽

Genetic Linkage ◽

Genetic Linkage Map ◽

Sequence Repeat ◽

Porphyra Haitanensis ◽

Simple Sequence

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A Genetic Linkage Map of Olive Based on Amplified Fragment Length Polymorphism, Intersimple Sequence Repeat and Simple Sequence Repeat Markers

Journal of the American Society for Horticultural Science ◽

10.21273/jashs.135.6.548 ◽

2010 ◽

Vol 135 (6) ◽

pp. 548-555 ◽

Cited By ~ 20

Author(s):

Bouchaib Khadari ◽

Amal Zine El Aabidine ◽

Cinderella Grout ◽

Inès Ben Sadok ◽

Agnès Doligez ◽

...

Keyword(s):

Linkage Map ◽

Length Polymorphism ◽

Fragment Length ◽

Simple Sequence Repeat ◽

Fragment Length Polymorphism ◽

Amplified Fragment Length Polymorphism ◽

Issr Markers ◽

Phenotypic Characterization ◽

Sequence Repeat ◽

Simple Sequence

A detailed genomic linkage map of the olive [Olea europaea L. ssp. europaea (2x = 2n = 46)] was constructed with a 147 F1 full-sib ‘Olivière’ × ‘Arbequina’ progeny in a two-way pseudo-test cross-mapping configuration. Based on a logarithm of odds threshold of 6 and a maximum recombination fraction of 0.4, maternal and paternal maps were constructed using 222 makers [178 amplified fragment length polymorphism (AFLP), 37 simple sequence repeat (SSR), seven intersimple sequence repeat (ISSR)] and 219 markers (174 AFLP, 39 SSR, 6 ISSR) markers, respectively. The female map regrouped 36 linkage groups (LGs) defining 2210.2 cM of total map length with an average marker spacing 11.2 cM and a maximum gap of 48.5 cM between adjacent markers. The male map contained 31 LGs and covered a distance of 1966.2 cM with an average and a maximum distance between two adjacent markers of 10.3 and 40.4 cM, respectively. Mean LG size was 61.3 and 63.4 cM in the maternal and paternal maps, respectively. The LGs consisted of two to 17 loci (up to 21 loci in the paternal map) and ranged in length from 2.7 to 182 cM (female map) or from 4.1 to 218.1 cM (paternal map). Markers were distributed throughout the maps without any clustering. The total length of the consensus map was 3823.2 cM containing 436 markers distributed into 42 LGs with a mean distance between two adjacent loci of 8.7 cM. Both parental maps and the consensus maps were compared with previously published olive maps. Although not saturated yet, the present maps offer a promising tool for quantitative trait loci mapping because phenotypic characterization of the cross is currently carried out.

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Simple Sequence Repeat (SSR) Genetic Linkage Map of D Genome Diploid Cotton Derived from an Interspecific Cross between Gossypium davidsonii and Gossypium klotzschianum

International Journal of Molecular Sciences ◽

10.3390/ijms19010204 ◽

2018 ◽

Vol 19 (1) ◽

pp. 204 ◽

Cited By ~ 10

Author(s):

Joy Kirungu ◽

Yanfeng Deng ◽

Xiaoyan Cai ◽

Richard Magwanga ◽

Zhongli Zhou ◽

...

Keyword(s):

Linkage Map ◽

Simple Sequence Repeat ◽

Genetic Linkage ◽

Genetic Linkage Map ◽

Interspecific Cross ◽

Sequence Repeat ◽

D Genome ◽

Diploid Cotton ◽

Simple Sequence

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A new intervarietal linkage map and its application for quantitative trait locus analysis of "gigas" features in bread wheat

Genome ◽

10.1139/g04-092 ◽

2005 ◽

Vol 48 (1) ◽

pp. 65-75 ◽

Cited By ~ 47

Author(s):

Kazuhiro Suenaga ◽

Mireille Khairallah ◽

H M William ◽

David A Hoisington

Keyword(s):

Quantitative Trait Locus ◽

Linkage Map ◽

Qtl Analysis ◽

Simple Sequence Repeat ◽

Sequence Repeat ◽

Linkage Groups ◽

Spike Number ◽

Trait Locus ◽

Dh Lines ◽

Simple Sequence

A doubled-haploid (DH) population from an intervarietal cross between the Japanese cultivar 'Fukuho-komugi' and the Israeli wheat line 'Oligoculm' was produced by means of wheat × maize crosses. One hundred seven DH lines were genotyped to construct a simple sequence repeat (SSR) based linkage map with RFLP, RAPD, and inter-simple sequence repeat markers. Out of 570 loci genotyped, 330 were chosen based on their positions on the linkage map to create a "framework" map for quantitative trait locus (QTL) analysis. Among the 28 linkage groups identified, 25 were assigned to the 21 chromosomes of wheat. The total map length was 3948 cM, including the three unassigned linkage groups (88 cM), and the mean interval between loci was 12.0 cM. Loci with segregation distortion were clustered on chromosomes 1A, 4B, 4D, 5A, 6A, 6B, and 6D. After vernalization, the DH lines were evaluated for spike number per plant (SN) and spike length (SL) in a greenhouse under 24-h daylength to assess the "gigas" features (extremely large spikes and leaves) of 'Oligoculm'. The DH lines were also autumn-sown in the field in two seasons (1990–1991 and 1997–1998) for SN and SL evaluation. QTL analysis was performed by composite interval mapping (CIM) with the framework map to detect QTLs for SN and SL. A major QTL on 1AS, which was stable in both greenhouse and field conditions, was found to control SN. This QTL was close to the glume pubescence locus (Hg) and explained up to 62.9% of the total phenotypic variation. The 'Oligoculm' allele restricted spike number. The SSR locus Xpsp2999 was the closest locus to this QTL and is considered to be a possible marker for restricted tillering derived from 'Oligoculm'. Eight QTLs were detected for SL. The largest QTL detected on 2DS was common to the greenhouse and field environments. It explained up to 33.3% of the total phenotypic variation. The second largest QTL on 1AS was common to the greenhouse and the 1997–1998 season. The position of this QTL was close to that for the SN detected on 1AS. The association between SN and SL is discussed.Key words: linkage map, microsatellite, QTL, spike length, spike number.

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