Genetic map of triticale compiling DArT, SSR, and AFLP markers

Genome ◽  
2011 ◽  
Vol 54 (5) ◽  
pp. 391-401 ◽  
Author(s):  
M. Tyrka ◽  
P.T. Bednarek ◽  
A. Kilian ◽  
M. Wędzony ◽  
T. Hura ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genetic Map ◽  
Genetic Linkage Map ◽  
Fragment Length Polymorphism ◽  
Aflp Markers ◽  
Structural Rearrangements ◽  
Linkage Groups ◽  
Array Technology ◽  
Dh Lines ◽  
Simple Sequence

A set of 90 doubled haploid (DH) lines derived from F1plants that originated from a cross between × Triticosecale Wittm. ‘Saka3006’ and ×Triticosecale Wittm. ‘Modus’, via wide crossing with maize, were used to create a genetic linkage map of triticale. The map has 21 linkage groups assigned to the A, B, and R genomes including 155 simple sequence repeat (SSR), 1385 diversity array technology (DArT), and 28 amplified fragment length polymorphism (AFLP) markers covering 2397 cM with a mean distance between two markers of 4.1 cM. Comparative analysis with wheat consensus maps revealed that triticale chromosomes of the A and B genomes were represented by 15 chromosomes, including combinations of 2AS.2AL#, 2AL#2BL, 6AS.6AL#, and 2BS.6AL# instead of 2A, 2B, and 6A. In respect to published maps of rye, substantial rearrangements were found also for chromosomes 1R, 2R, and 3R of the rye genome. Chromosomes 1R and 2R were truncated and the latter was linked with 3R. A nonhomogeneous distribution of markers across the triticale genome was observed with evident bias (48%) towards the rye genome. This genetic map may serve as a reference linkage map of triticale for efficient studies of structural rearrangements, gene mapping, and marker-assisted selection.

scholarly journals A Genetic Linkage Map of the Model Legume Lotus japonicus and Strategies for Fast Mapping of New Loci

Genetics ◽  
2002 ◽  
Vol 161 (4) ◽  
pp. 1673-1683 ◽  
Author(s):  
Niels Sandal ◽  
Lene Krusell ◽  
Simona Radutoiu ◽  
Magdalena Olbryt ◽  
Andrea Pedrosa ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genetic Map ◽  
Length Polymorphism ◽  
Fragment Length ◽  
Fragment Length Polymorphism ◽  
Lotus Japonicus ◽  
Aflp Markers ◽  
Linkage Groups ◽  
Model Legume ◽  
Group I

Abstract A genetic map for the model legume Lotus japonicus has been developed. The F2 mapping population was established from an interspecific cross between L. japonicus and L. filicaulis. A high level of DNA polymorphism between these parents was the source of markers for linkage analysis and the map is based on a framework of amplified fragment length polymorphism (AFLP) markers. Additional markers were generated by restriction fragment length polymorphism (RFLP) and sequence-specific PCR. A total of 524 AFLP markers, 3 RAPD markers, 39 gene-specific markers, 33 microsatellite markers, and six recessive symbiotic mutant loci were mapped. This genetic map consists of six linkage groups corresponding to the six chromosomes in L. japonicus. Fluorescent in situ hybridization (FISH) with selected markers aligned the linkage groups to chromosomes as described in the accompanying article by Pedrosa  et al. (2002, this issue). The length of the linkage map is 367 cM and the average marker distance is 0.6 cM. Distorted segregation of markers was found in certain sections of the map and linkage group I could be assembled only by combining colormapping and cytogenetics (FISH). A fast method to position genetic loci employing three AFLP primer combinations yielding 89 markers was developed and evaluated by mapping three symbiotic loci, Ljsym1, Ljsym5, and Ljhar1-3.

scholarly journals An enhanced molecular marker based genetic map of perennial ryegrass (Lolium perenne) reveals comparative relationships with other Poaceae genomes

Genome ◽  
2002 ◽  
Vol 45 (2) ◽  
pp. 282-295 ◽  
Author(s):  
Elizabeth S Jones ◽  
Natalia L Mahoney ◽  
Michael D Hayward ◽  
Ian P Armstead ◽  
J Gilbert Jones ◽  
...  
Keyword(s):  
Molecular Marker ◽  
Linkage Map ◽  
Genetic Map ◽  
Lolium Perenne ◽  
Perennial Ryegrass ◽  
Genetic Linkage Map ◽  
Population Based ◽  
Genetic Maps ◽  
Linkage Groups ◽  
Integrated Genetic Map

A molecular-marker linkage map has been constructed for perennial ryegrass (Lolium perenne L.) using a one-way pseudo-testcross population based on the mating of a multiple heterozygous individual with a doubled haploid genotype. RFLP, AFLP, isoenzyme, and EST data from four collaborating laboratories within the International Lolium Genome Initiative were combined to produce an integrated genetic map containing 240 loci covering 811 cM on seven linkage groups. The map contained 124 codominant markers, of which 109 were heterologous anchor RFLP probes from wheat, barley, oat, and rice, allowing comparative relationships between perennial ryegrass and other Poaceae species to be inferred. The genetic maps of perennial ryegrass and the Triticeae cereals are highly conserved in terms of synteny and colinearity. This observation was supported by the general agreement of the syntenic relationships between perennial ryegrass, oat, and rice and those between the Triticeae and these species. A lower level of synteny and colinearity was observed between perennial ryegrass and oat compared with the Triticeae, despite the closer taxonomic affinity between these species. It is proposed that the linkage groups of perennial ryegrass be numbered in accordance with these syntenic relationships, to correspond to the homoeologous groups of the Triticeae cereals.Key words: Lolium perenne, genetic linkage map, RFLP, AFLP, conserved synteny.

scholarly journals Genetic Linkage Map of the Edible BasidiomycetePleurotus ostreatus

2000 ◽  
Vol 66 (12) ◽  
pp. 5290-5300 ◽  
Author(s):  
Luis M. Larraya ◽  
G�mer P�rez ◽  
Enrique Ritter ◽  
Antonio G. Pisabarro ◽  
Lucı́a Ramı́rez
Keyword(s):  
Linkage Map ◽  
Genetic Linkage ◽  
Gene Sequence ◽  
Genetic Linkage Map ◽  
Fragment Length Polymorphism ◽  
Individual Cell ◽  
Random Amplified Polymorphic Dna ◽  
Rrna Gene ◽  
Linkage Groups ◽  
Rrna Gene Sequence

ABSTRACT We have constructed a genetic linkage map of the edible basidiomycete Pleurotus ostreatus (var. Florida). The map is based on the segregation of 178 random amplified polymorphic DNA and 23 restriction fragment length polymorphism markers; four hydrophobin, two laccase, and two manganese peroxidase genes; both mating type loci; one isozyme locus (est1); the rRNA gene sequence; and a repetitive DNA sequence in a population of 80 sibling monokaryons. The map identifies 11 linkage groups corresponding to the chromosomes ofP. ostreatus, and it has a total length of 1,000.7 centimorgans (cM) with an average of 35.1 kbp/cM. The map shows a high correlation (0.76) between physical and genetic chromosome sizes. The number of crossovers observed per chromosome per individual cell is 0.89. This map covers nearly the whole genome of P. ostreatus.

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

Genome ◽  
2005 ◽  
Vol 48 (1) ◽  
pp. 65-75 ◽  
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.

scholarly journals A Molecular Genetic Map and Electrophoretic Karyotype of the Plant Pathogenic Fungus Cochliobolus sativus

2002 ◽  
Vol 15 (5) ◽  
pp. 481-492 ◽  
Author(s):  
Shaobin Zhong ◽  
Brian J. Steffenson ◽  
J. Patrick Martinez ◽  
Lynda M. Ciuffetti
Keyword(s):  
Genetic Map ◽  
Length Polymorphism ◽  
Fragment Length Polymorphism ◽  
Molecular Genetic ◽  
Aflp Markers ◽  
Cochliobolus Sativus ◽  
Electrophoretic Karyotype ◽  
Linkage Groups ◽  
Molecular Genetic Map ◽  
Map Distance

A molecular genetic map was constructed and an electrophoretic karyotype was resolved for Cochliobolus sativus, the causal agent of spot blotch of barley and wheat. The genetic map consists of 27 linkage groups with 97 amplified fragment length polymorphism (AFLP) markers, 31 restriction fragment length polymorphism (RFLP) markers, two polymerase chain reaction amplified markers, the mating type locus (CsMAT), and a gene (VHv1) conditioning high virulence on barley cv. Bowman. These linkage groups covered a map distance of 849 cM. The virulence gene VHv1 cosegregated with six AFLP markers and was mapped on one of the major linkage groups. Fifteen chromosome-sized DNAs were resolved in C. sativus isolates ND93-1 and ND90Pr with contour-clamped homogeneous electric field (CHEF) electrophoresis combined with telo-mere probe analysis of comigrating chromosome-sized DNAs. The chromosome sizes ranged from 1.25 to 3.80 Mbp, and the genome size of the fungus was estimated to be approximately 33 Mbp. By hybridizing genetically mapped RFLP and AFLP markers to CHEF blots, 25 of the 27 linkage groups were assigned to specific chromosomes. The barley-specific virulence locus VHv1 was localized on a chromosome of 2.80 Mbp from isolate ND90Pr in the CHEF gel. The total map length of the fungus was estimated to be at least 1,329 cM based on the map distance covered by the linked markers and the estimated gaps. Therefore, the physical to genetic distance ratio is approximately 25 kb/cM. Construction of a high-resolution map around target loci will facilitate the cloning of the genes conferring virulence and other characters in C. sativus by a map-based cloning strategy.

Mapping Unexplored Genomes: A Genetic Linkage Map of the Hawaiian Cricket Laupala

Genetics ◽  
2002 ◽  
Vol 162 (3) ◽  
pp. 1275-1282 ◽  
Author(s):  
Y M Parsons ◽  
K L Shaw
Keyword(s):  
Linkage Map ◽  
Genomic Dna ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Fragment Length Polymorphism ◽  
Linkage Groups ◽  
Marker System ◽  
Map Construction ◽  
Species Specific ◽  
Genomic Map

Abstract As with many organisms of evolutionary interest, the Hawaiian cricket Laupala genome is not well characterized genetically. Mapping such an unexplored genome therefore presents challenges not often faced in model genetic organisms and not well covered in the literature. We discuss the evolutionary merits of Laupala as a model for speciation studies involving prezygotic change, our choice of marker system for detecting genetic variation, and the initial genetic expectations pertaining to the construction of any unknown genomic map in general and to the Laupala linkage map construction in particular. We used the technique of amplified fragment length polymorphism (AFLP) to develop a linkage map of Laupala. We utilized both EcoRI/MseI- and EcoRI/PstI-digested genomic DNA to generate AFLP bands and identified 309 markers that segregated among F2 interspecific hybrid individuals. The map is composed of 231 markers distributed over 11 and 7 species-specific autosomal groups together with a number of putative X chromosome linkage groups. The integration of codominant markers enabled the identification of five homologous linkage groups corresponding to five of the seven autosomal chromosomal pairs found in Laupala.

An Amplified Fragment Length Polymorphism Map of the Silkworm

Genetics ◽  
2001 ◽  
Vol 157 (3) ◽  
pp. 1277-1284 ◽  
Author(s):  
Yuan-De Tan ◽  
Chunling Wan ◽  
Yufang Zhu ◽  
Chen Lu ◽  
Zhonghuai Xiang ◽  
...  
Keyword(s):  
Linkage Group ◽  
Linkage Map ◽  
Length Polymorphism ◽  
Fragment Length ◽  
Fragment Length Polymorphism ◽  
Amplified Fragment Length Polymorphism ◽  
Aflp Markers ◽  
Polymorphic Markers ◽  
Linkage Groups ◽  
Group 3

Abstract The silkworm (Bombyx mori L.) is a lepidopteran insect with a long history of significant agricultural value. We have constructed the first amplified fragment length polymorphism (AFLP) genetic linkage map of the silkworm B. mori at a LOD score of 2.5. The mapping AFLP markers were genotyped in 47 progeny from a backcross population of the cross no. 782 × od100. A total of 1248 (60.7%) polymorphic AFLP markers were detected with 35 PstI/TaqI primer combinations. Each of the primer combinations generated an average of 35.7 polymorphic AFLP markers. A total of 545 (44%) polymorphic markers are consistent with the expected segregation ratio of 1:1 at the significance level of P = 0.05. Of the 545 polymorphic markers, 356 were assigned to 30 linkage groups. The number of markers on linkage groups ranged from 4 to 36. There were 21 major linkage groups with 7-36 markers and 9 relatively small linkage groups with 4-6 markers. The 30 linkage groups varied in length from 37.4 to 691.0 cM. The total length of this AFLP linkage map was 6512 cM. Genetic distances between two neighboring markers on the same linkage group ranged from 0.2 to 47 cM with an average of 18.2 cM. The sex-linked gene od was located between the markers P1T3B40 and P3T3B27 at the end of group 3, indicating that AFLP linkage group 3 was the Z (sex) chromosome. This work provides an essential basic map for constructing a denser linkage map and for mapping genes underlying agronomically important traits in the silkworm B. mori L.

scholarly journals DNA Markers from Different Linkage Regions of Watermelon Genome Useful in Differentiating among Closely Related Watermelon Genotypes

HortScience ◽  
2007 ◽  
Vol 42 (2) ◽  
pp. 210-214 ◽  
Author(s):  
Amnon Levi ◽  
Claude E. Thomas
Keyword(s):  
Linkage Map ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Fragment Length Polymorphism ◽  
Citrullus Lanatus ◽  
Plant Introduction ◽  
Polymorphic Markers ◽  
Linkage Groups ◽  
Breeding Lines ◽  
Srap Markers

A genetic linkage map was previously constructed for watermelon using a wide testcross population [{Plant Accession Griffin 14113; Citrullus lanatus var. citroides (L.H. Baiely) Mansf.} × the watermelon cultivar New Hampshire Midget; NHM {(Citrullus lanatus (Thunb.) Matsum. & Nakai var. lanatus)} × United States Plant Introduction (PI) 386015 {Citrullus colocynthis (L.) Schrad.}]. One-hundred forty-six markers [randomly amplified polymorphic DNA (RAPD), intersimple sequence repeat (ISSR), amplified fragment length polymorphism (AFLP), and sequence-related amplified polymorphism (SRAP) markers] unique to NHM and representing different linkage groups on the map were tested for polymorphism among 24 watermelon cultivars limited in genetic diversity. Five (9.4%) of 53 RAPD, six (40.0%) of 15 ISSR, 30 (81.0%) of 37 AFLP, and 33 (80.5%) of 41 SRAP markers tested produced polymorphism among the 24 cultivars. The polymorphic markers used in this study are scattered throughout the watermelon genome. However, a large number (19 of the 30) of AFLP markers clustered on one linkage group on the map. The SRAP markers proved to be most effective in producing polymorphism and in representing different linkage regions of watermelon genome. The polymorphic markers represent all 10 large linkage groups and five of the nine small linkage groups (altogether 15 of 19 linkage groups) of the genetic linkage map constructed so far for watermelon. These polymorphic markers can be useful in DNA fingerprinting of cultivars, in testing seed purity of breeding lines, and in identifying triploid (seedless) hybrid watermelons derived from crosses between closely related tetraploid and diploid lines.

Development of a genetic linkage map and identification of homologous linkage groups in sweetpotato using multiple-dose AFLP markers

2007 ◽  
Vol 21 (4) ◽  
pp. 511-532 ◽  
Author(s):  
Jim C. Cervantes-Flores ◽  
G. Craig Yencho ◽  
Albert Kriegner ◽  
Kenneth V. Pecota ◽  
Maria A. Faulk ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genetic Linkage ◽  
Multiple Dose ◽  
Genetic Linkage Map ◽  
Aflp Markers ◽  
Linkage Groups

scholarly journals Molecular genetic mapping in apricot

2012 ◽  
Vol 38 (No. 2) ◽  
pp. 65-68 ◽  
Author(s):  
J. Salava ◽  
Y. Wang ◽  
B. Krška ◽  
J. Polák ◽  
P. Komínek ◽  
...  
Keyword(s):  
Marker Assisted Selection ◽  
Genetic Linkage Map ◽  
Fragment Length Polymorphism ◽  
Molecular Genetic ◽  
Nuclear Genome ◽  
Prunus Armeniaca ◽  
Aflp Markers ◽  
Plum Pox Virus ◽  
Linkage Groups ◽  
Prunus Armeniaca L

A genetic linkage map for apricot (Prunus armeniaca L.) has been constructed using amplified fragment length polymorphism (AFLP) markers in 80 BC1 individuals derived from a cross LE-3246 × Vestar. From 26 different primer combinations, a total of 248 AFLP markers were scored, of which, 40 were assigned to 8 linkage groups covering 315.8 cM of the apricot nuclear genome. The average interval between these markers was 7.7 cM. One gene (PPVres1) involved in resistance to PPV (Plum pox virus) was mapped. Two AFLP markers (EAA/MCAG8 and EAG/MCAT14) were found to be closely associated with the PPVres1 locus (4.6 cM resp. 4.7 cM). These markers are being characterized and they will be studied for utilization in apricot breeding with marker-assisted selection (MAS).

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