scholarly journals 558 Evaluation of Sequence-based PCR Markers in an F1 Pseudo-testcross and a BC1 Hybrid Citrus Population

HortScience ◽  
1999 ◽  
Vol 34 (3) ◽  
pp. 542D-542
Author(s):  
Courtney A. Weber ◽  
Gloria A. Moore ◽  
Z. Deng ◽  
F. Gmitter ◽  
Courtney A. Weber
Keyword(s):  
Linkage Map ◽  
Poncirus Trifoliata ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Pcr Markers ◽  
Specific Primers ◽  
Sts Markers ◽  
Research And Education

Specific primers were designed for 61 cloned RAPD fragments and from 10 Citrus EST sequences for the production of SCAR, CAPS, and STS markers for a Citrus grandis `DPI 6-4' × Poncirus trifoliata `Rubideaux' F1 pseudo-testcross population. Fifteen SCAR, three CAPS, and one EST/STS markers were developed. An additional 17 SCAR and CAPS primer pairs developed at the Citrus Research and Education Center for a Citrus grandis `Thong Dee' × (Citrus grandis `Thong Dee' × Poncirus trifoliata `Pomeroy') BC1 population were screened in the pseudo-testcross population. A total of 27 markers were identified and scored in the pseudo-testcross population in which 24 were mapped; 13 in the Citrus parental linkage map on seven linkage groups and 11 in the Poncirus parental map on five linkage groups. In the BC1 population, 20 of 27 markers tested were found to be polymorphic and 13 mapped to seven of nine linkage groups. Of these, 11 were mapped in both populations and could be used for aligning presumed homologous regions on the three linkage maps.

Two genetic linkage maps of mungbean using RFLP and RAPD markers

2000 ◽  
Vol 51 (4) ◽  
pp. 415 ◽  
Author(s):  
C. J. Lambrides ◽  
R. J. Lawn ◽  
I. D. Godwin ◽  
J. Manners ◽  
B. C. Imrie
Keyword(s):  
Linkage Map ◽  
Segregation Distortion ◽  
Recombinant Inbred ◽  
Genetic Linkage ◽  
Rapd Markers ◽  
Rflp Markers ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Genetic Linkage Maps ◽  
Map Distance

Two genetic linkage maps of mungbean derived from the cross Berken ACC 41 are reported. The F2 map constructed from 67 individuals consisted of 110 markers (52 RFLP and 56 RAPD) that grouped into 12 linkage groups. The linked markers spanned a total map distance of 758.3 cM. A recombinant inbred (RI) population derived from the 67 F2 individuals was used for the generation of an additional linkage map. The RI map, composed entirely of RAPD markers, consisted of 115 markers in 12 linkage groups. The linked markers spanned a total map distance of 691.7 cM. Using a framework set of RFLP markers, the F2 map was compared with another F2 mungbean map constructed in Minnesota. In general, the order of these markers was consistent between maps. Segregation distortion was observed for some markers. 14.5% (16/110) of mapped F2 markers and 24% (28/115) of mapped RI markers segregated with distorted ratios. Segregation distortion occurred in each successive generation after the F2 . The regions of distortion identified in the Australian maps did not coincide with regions of the Minnesota map.

Integration of the Cytogenetic and Genetic Linkage Maps of Brassica oleracea

Genetics ◽  
2002 ◽  
Vol 161 (3) ◽  
pp. 1225-1234 ◽  
Author(s):  
Elaine C Howell ◽  
Guy C Barker ◽  
Gareth H Jones ◽  
Michael J Kearsey ◽  
Graham J King ◽  
...  
Keyword(s):  
Linkage Map ◽  
Brassica Oleracea ◽  
Genetic Map ◽  
Genetic Linkage ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Opposite Orientation ◽  
Cytogenetic Map ◽  
Specific Pcr ◽  
Genetic Linkage Maps

Abstract We have assigned all nine linkage groups of a Brassica oleracea genetic map to each of the nine chromosomes of the karyotype derived from mitotic metaphase spreads of the B. oleracea var. alboglabra line A12DHd using FISH. The majority of probes were BACs, with A12DHd DNA inserts, which give clear, reliable FISH signals. We have added nine markers to the existing integrated linkage map, distributed over six linkage groups. BACs were definitively assigned to linkage map positions through development of locus-specific PCR assays. Integration of the cytogenetic and genetic linkage maps was achieved with 22 probes representing 19 loci. Four chromosomes (2, 4, 7, and 9) are in the same orientation as their respective linkage groups (O4, O7, O8, and O6) whereas four chromosomes (1, 3, 5, and 8) and linkage groups (O3, O9, O2, and O1) are in the opposite orientation. The remaining chromosome (6) is probably in the opposite orientation. The cytogenetic map is an important resource for locating probes with unknown genetic map positions and is also being used to analyze the relationships between genetic and cytogenetic maps.

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

Genome ◽  
2011 ◽  
Vol 54 (10) ◽  
pp. 819-828 ◽  
Author(s):  
Ivan W. Mott ◽  
Steven R. Larson ◽  
Thomas A. Jones ◽  
Joseph G. Robins ◽  
Kevin B. Jensen ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Molecular Genetic ◽  
Perennial Grass ◽  
Rice Genome ◽  
Backcross Progeny ◽  
Linkage Groups ◽  
Sts Markers ◽  
Snake River Wheatgrass

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 wheatgrass) and rhizomatous Elymus lanceolatus (EL) (thickspike wheatgrass) to produce F1 interspecific hybrids that were then backcrossed to the same EL male to generate progeny with segregating phenotypes. EW and EL are both allotetraploid species (n = 14) containing the St (Pseudoroegneria) and H (Hordeum) genomes. A total of 387 backcross progeny from four populations were genotyped using 399 AFLP and 116 EST-based SSR and STS markers. The resulting consensus map was 2574 cM in length apportioned among the expected number of 14 linkage groups. EST-based SSR and STS markers with homology to rice genome sequences were used to identify Elymus linkage groups homoeologous to chromosomes 1–7 of wheat. The frequency of St-derived genome markers on each linkage group was used to assign genome designations to all linkage groups, resulting in the identification of the seven St and seven H linkage groups of Elymus. This map also confirms the alloploidy and disomic chromosome pairing and segregation of Elymus and will be useful in identifying QTLs controlling perennial grass traits in this genus.

Integration of molecular and classical linkage groups of the silkworm, Bombyx mori (n = 28)

Genome ◽  
2005 ◽  
Vol 48 (4) ◽  
pp. 626-629 ◽  
Author(s):  
Yuji Yasukochi ◽  
Yutaka Banno ◽  
Kohji Yamamoto ◽  
Marian R Goldsmith ◽  
Hiroshi Fujii
Keyword(s):  
Molecular Markers ◽  
Linkage Group ◽  
Linkage Analysis ◽  
Linkage Map ◽  
Bombyx Mori ◽  
Linkage Maps ◽  
Wild Type ◽  
Linkage Groups ◽  
Sequence Tagged Sites ◽  
Silkworm Bombyx Mori

Previously published linkage groups (LGs) composed of molecular markers were assigned to classical LGs in the silkworm, Bombyx mori (n = 28). Four markers from the classical linkage map, og, w-1, Lp, and Pfl, were assigned to the molecular linkage maps using sequence tagged sites. In addition, linkage analysis was carried out using BF1 progeny between wild-type and mutant stocks carrying morphological phenotypic markers. As a result, the counterparts for 26 of 28 molecular LGs were identified with their counterparts of the classical LGs. Two visible markers, Sel and Xan, representing different classical LGs, were found to be linked.Key words: Bombyx mori, classical linkage group (LG), PCR-based genotyping, mutant, STS.

RAPD-based genetic linkage maps of yellow passion fruit (Passiflora edulis Sims. f. flavicarpa Deg.)

Genome ◽  
2002 ◽  
Vol 45 (4) ◽  
pp. 670-678 ◽  
Author(s):  
Monalisa Sampaio Carneiro ◽  
Luis Eduardo Aranha Camargo ◽  
Alexandre Siqueira Guedes Coelho ◽  
Roland Vencovsky ◽  
Rui Pereira Leite Júnior ◽  
...  
Keyword(s):  
Genetic Mapping ◽  
Linkage Map ◽  
Average Distance ◽  
Passion Fruit ◽  
Bacterial Disease ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Passiflora Edulis ◽  
Starting Point ◽  
Passiflora Edulis Sims

A single cross between two clones of passion fruit (Passiflora edulis Sims. f. flavicarpa Deg., 2n = 18) was selected for genetic mapping. The mapping population was composed of 90 F1 plants derived from a cross between 'IAPAR 123' (female parent) and 'IAPAR 06' (male parent). A total of 380 RAPD primers were analyzed according to two-way pseudo-testcross mapping design. The linkage analysis was performed using Mapmaker version 3.0 with LOD 4.0 and a maximum recombination fraction (θ) of 0.30. Map distances were estimated using the Kosambi mapping function. Linkage maps were constructed with 269 loci (2.38 markers/primer), of which 255 segregated 1:1, corresponding to a heterozygous state in one parent and null in the other. The linkage map for 'IAPAR123' consisted of 135 markers. A total of nine linkage groups were assembled covering 727.7 cM, with an average distance of 11.20 cM between framework loci. The sizes of the linkage groups ranged from 56 to 144.6 cM. The linkage map for 'IAPAR 06' consisted of 96 markers, covering 783.5 cM. The average distance between framework loci was 12.2 cM. The length of the nine linkage groups ranged from 20.6 to 144.2 cM. On average, both maps provided 61% genome coverage. Twenty-four loci (8.9%) remained unlinked. Among their many applications, these maps are a starting point for the identification of quantitative trait loci for resistance to the main bacterial disease affecting passion fruit orchards in Brazil, caused by Xanthomonas campestris pv. passiflorae, because parental genotypes exhibit diverse responses to bacterial inoculation.Key words: Passiflora, genetic mapping, molecular markers, pseudo-testcross mapping strategy.

scholarly journals Genetic linkage maps of 'Pêra' sweet orange and 'Cravo' mandarin with RAPD markers

2004 ◽  
Vol 39 (2) ◽  
pp. 159-165 ◽  
Author(s):  
Roberto Pedroso de Oliveira ◽  
Mariângela Cristofani ◽  
Marcos Antônio Machado
Keyword(s):  
Linkage Map ◽  
Segregation Distortion ◽  
Rapd Markers ◽  
Sweet Orange ◽  
Citrus Canker ◽  
F1 Hybrids ◽  
Citrus Reticulata ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Genetic Linkage Maps

The objective of this work was to construct linkage maps of 'Pêra' sweet orange [Citrus sinensis (L.) Osbeck] and 'Cravo' mandarin (Citrus reticulata Blanco) using RAPD markers and the pseudo-testcross strategy. The parents were chosen according to the resistance/susceptibility to citrus variegate chlorosis (CVC). The segregation of 176 markers was analyzed in 94 progeny of F1 hybrids, which were obtained from controlled crossings. The linkage map of 'Pêra' sweet orange had 117 markers defined by 12 linkage groups, which spanned 612.1 cM. Only six markers could not be linked to the linkage group and 48.7% of the markers showed segregation distortion. The linkage map of 'Cravo' mandarin had 51 markers defined by 12 linkage groups, which spanned 353.3 cM. Only two markers did not link to the groups and 15.7% showed segregation distortion. The construction of linkage maps is relevant to future mapping studies of the inheritance of CVC, citrus canker and leprosis.

scholarly journals Construction of a microsatellite-based genetic linkage map for half-smooth tongue sole Cynoglossus semilaevis

2013 ◽  
Vol 59 (1) ◽  
pp. 99-108 ◽  
Author(s):  
Wentao Song ◽  
Guidong Miao ◽  
Yongwei Zhao ◽  
Yuze Niu ◽  
Renyi Pang ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Cynoglossus Semilaevis ◽  
Scar Markers ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Tongue Sole ◽  
Genetic Linkage Maps ◽  
Half Smooth Tongue Sole

Abstract The half-smooth tongue sole Cynoglossus semilaevis is an important cultured marine fish and a promising model fish for the study of sex determination. Sex-specific genetic linkage maps of half-smooth tongue sole were developed with 567 markers (565 microsatellite markers and two SCAR markers). The parents and F1 progeny (92 individuals) were used as segregating populations. The female map was composed of 480 markers in 21 linkage groups, covering a total of 1388.1 cM, with an average interval 3.06 cM between markers. The male map consisted of 417 markers in 21 linkage groups, spanning 1480.9 cM, with an average interval of 3.75 cM. The female and male maps had 474 and 416 unique positions, respectively. The genome length of half-smooth tongue sole was estimated to be 1522.9 cM for females and 1649.1cM for males. Based on estimations of map length, the female and male maps covered 91.1% and 89.8% of the genome, respectively. Furthermore, two female-specific SCAR markers, f-382 and f-783, were mapped on LG15f (linkage group 15 in female maps). The present study presents a mid-density genetic linkage map for half-smooth tongue sole. These improved genetic linkage maps may facilitate systematic genome searches to identify quantitative trait loci (QTL), such as disease resistance, growth and sex-related traits, and are very useful for marker-assisted selection breeding programs for economically important traits in half-smooth tongue sole.

An autosomal genetic linkage map of the sheep genome.

Genetics ◽  
1995 ◽  
Vol 140 (2) ◽  
pp. 703-724 ◽  
Author(s):  
A M Crawford ◽  
K G Dodds ◽  
A J Ede ◽  
C A Pierson ◽  
G W Montgomery ◽  
...  
Keyword(s):  
Linkage Analysis ◽  
Microsatellite Markers ◽  
Linkage Map ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Polymorphic Markers ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Sheep Genome ◽  
International Mapping Flock

Abstract We report the first extensive ovine genetic linkage map covering 2070 cM of the sheep genome. The map was generated from the linkage analysis of 246 polymorphic markers, in nine three-generation full-sib pedigrees, which make up the AgResearch International Mapping Flock. We have exploited many markers from cattle so that valuable comparisons between these two ruminant linkage maps can be made. The markers, used in the segregation analyses, comprised 86 anonymous microsatellite markers derived from the sheep genome, 126 anonymous microsatellites from cattle, one from deer, and 33 polymorphic markers of various types associated with known genes. The maximum number of informative meioses within the mapping flock was 222. The average number of informative meioses per marker was 140 (range 18-209). Linkage groups have been assigned to all 26 sheep autosomes.

scholarly journals A European whitefish linkage map and its implications for understanding genome-wide synteny between salmonids following whole genome duplication

2018 ◽  
Author(s):  
Rishi De-Kayne ◽  
Philine G.D. Feulner
Keyword(s):  
Atlantic Salmon ◽  
Linkage Map ◽  
Genome Structure ◽  
Model Organisms ◽  
Rate Variation ◽  
Linkage Maps ◽  
Linkage Groups ◽  
Sequencing Data ◽  
Starting Point ◽  
Selection Of Species

AbstractGenomic datasets continue to increase in size and ease of production for a wider selection of species including non-model organisms. For many of these species highly contiguous and well-annotated genomes are unavailable due to their prohibitive complexity and cost. As a result, a common starting point for genomic work in non-model species is the production of a linkage map, which involves the grouping and relative ordering of genetic markers along the genome. Dense linkage maps facilitate the analysis of genomic data in a variety of ways, from broad scale observations regarding genome structure e.g. chromosome number and type or sex-related structural differences, to fine scale patterns e.g. recombination rate variation and co-localisation of differentiated regions. Here we present both a sex-averaged and sex-specific linkage maps for Coregonus sp. “Albock” containing 5395 single nucleotide polymorphism (SNP) loci across 40 linkage groups to facilitate future investigation into the genomic basis of whitefish adaptation and speciation. The map was produced using restriction-site associated digestion (RAD) sequencing data from two wild-caught parents and 156 F1 offspring in Lep-MAP3. We discuss the differences between our sex-avagerated and sex-specific maps and identify synteny between C. sp. “Albock” linkage groups and the Atlantic salmon (Salmo salar) genome. Our synteny analysis confirms that many patterns of homology observed between Atlantic salmon and Oncorhynchus and Salvelinus species are also shared by members of the Coregoninae subfamily.

scholarly journals Secondary Trisomics and Telotrisomics of Rice: Origin, Characterization, and Use in Determining the Orientation of Chromosome Map

Genetics ◽  
1996 ◽  
Vol 143 (1) ◽  
pp. 517-529
Author(s):  
Kuldeep Singh ◽  
D S Multani ◽  
Gurdev S Khush
Keyword(s):  
Linkage Map ◽  
Large Population ◽  
Marker Genes ◽  
Linkage Groups ◽  
Breeding Behavior ◽  
Specific Chromosome ◽  
Chromosome Map ◽  
Primary Trisomics ◽  
Correct Orientation ◽  
Genetic Segregation

Abstract Secondary trisomics and telotrisomics representing the 12 chromosomes of rice were isolated from the progenies of primary trisomics. A large population of each primary trisomic was grown. Plants showing variation in gross morphology compared to the primary trisomics and disomic sibs were selected and analyzed cytologically at diakinesis and pachytene. Secondary trisomics for both arms of chromosomes 1, 2, 6, 7 and 11 and for one arm of chromosomes 4, 5, 8, 9 and 12 were identified. Telotrisomics for short arm of chromosomes 1, 8, 9 and 10 and for long arms of chromosomes 2, 3 and 5 were isolated. These secondary and telotrisomics were characterized morphologically and for breeding behavior. Secondary trisomics 2n + 1S · 1S, 2n + 1L · 1L, 2n + 2S · 2S, 2n + 2L · 2L, 2n + 6S · 6S, 2n + 6L · 6L and 2n + 7L · 7L are highly sterile, and 2n + 1L · 1L, 2n + 2L · 2L and 2n + 7L · 7L do not set any seed even upon backcrossing. Telotrisomics are fertile and vigorous. Genetic segregation of 43 marker genes was studied in the F2 or backcross progenies. On the basis of segregation data, these genes were delimited to specific chromosome arms. Correct orientation of 10 linkage groups was determined and centromere positions on nine linkage groups were approximated. A revised linkage map of rice is presented.

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