Synteny with rice: analysis of barley malting quality QTLs and rpg4 chromosome regions

Genome ◽  
1998 ◽  
Vol 41 (3) ◽  
pp. 373-380 ◽  
Author(s):  
F Han ◽  
A Kleinhofs ◽  
S E Ullrich ◽  
A Kilian ◽  
M Yano ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Resistance Gene ◽  
Quantitative Trait ◽  
Rice Chromosome ◽  
Chromosome 8 ◽  
Chromosome 1 ◽  
Barley Chromosome ◽  
Malting Quality ◽  
Centromere Region ◽  
Trait Loci

The barley (Hordeum vulgare L.) chromosome 1 centromere region contains two adjacent overlapping quantitative trait loci (QTLs) for malting quality traits, and the chromosome 7L subtelomere region contains the stem rust (causal agent Puccinia graminis f.sp. tritici) resistance gene rpg4. To facilitate the saturation mapping of these two target regions, a synteny-based approach was employed. Syntenic relationships between the barley target regions and the rice (Oryza sativa) genome were established through comparative mapping. The barley chromosome 1 centromere region was found to be syntenic with rice chromosome 8 and parts of rice chromosomes 3 and 10. A 6- to 15-fold difference in genetic distance between barley and rice in the syntenic region was observed, owing to the apparent suppressed recombination in the barley chromosome 1 centromere region. Barley chromosome 7L was found to be syntenic with rice chromosome 3. The establishment of synteny with rice in the two target regions allows well-established and characterized rice resources to be utilized in fine mapping and map-based cloning studies.Key words: genome synteny, quantitative trait loci, QTL, disease resistance gene, Triticeae.

scholarly journals Identification of Quantitative Trait Loci Influencing Traits Related to Energy Balance in Selection and Inbred Lines of Mice

Genetics ◽  
1999 ◽  
Vol 152 (2) ◽  
pp. 699-711 ◽  
Author(s):  
D E Moody ◽  
D Pomp ◽  
M K Nielsen ◽  
L D Van Vleck
Keyword(s):  
Quantitative Trait Loci ◽  
Energy Balance ◽  
Heat Loss ◽  
Quantitative Trait ◽  
Subcutaneous Fat ◽  
High Heat ◽  
Chromosome 1 ◽  
Direct Calorimetry ◽  
Resource Population ◽  
Trait Loci

Abstract Energy balance is a complex trait with relevance to the study of human obesity and maintenance energy requirements of livestock. The objective of this study was to identify, using unique mouse models, quantitative trait loci (QTL) influencing traits that contribute to variation in energy balance. Two F2 resource populations were created from lines of mice differing in heat loss measured by direct calorimetry as an indicator of energy expenditure. The HB F2 resource population originated from a cross between a noninbred line selected for high heat loss and an inbred line with low heat loss. Evidence for significant QTL influencing heat loss was found on chromosomes 1, 2, 3, and 7. Significant QTL influencing body weight and percentage gonadal fat, brown fat, liver, and heart were also identified. The LH F2 resource population originated from noninbred lines of mice that had undergone divergent selection for heat loss. Chromosomes 1 and 3 were evaluated. The QTL for heat loss identified on chromosome 1 in the HB population was confirmed in the LH population, although the effect was smaller. The presence of a QTL influencing 6-wk weight was also confirmed. Suggestive evidence for additional QTL influencing heat loss, percentage subcutaneous fat, and percentage heart was found for chromosome 1.

scholarly journals Association Mapping of Malting Quality Quantitative Trait Loci in Winter Barley: Positive Signals from Small Germplasm Arrays

2011 ◽  
Vol 4 (3) ◽  
pp. 256-272 ◽  
Author(s):  
Lucía Gutiérrez ◽  
Alfonso Cuesta-Marcos ◽  
Ariel J. Castro ◽  
Jarislav von Zitzewitz ◽  
Mark Schmitt ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Association Mapping ◽  
Quantitative Trait ◽  
Winter Barley ◽  
Malting Quality ◽  
Trait Loci

scholarly journals Chlorophyll Retention and High Photosynthetic Performance Contribute to Salinity Tolerance in Rice Carrying Drought Tolerance Quantitative Trait Loci (QTLs)

Agriculture ◽  
2020 ◽  
Vol 10 (12) ◽  
pp. 620
Author(s):  
Noppawan Nounjan ◽  
Wuttipong Mahakham ◽  
Jonaliza L. Siangliw ◽  
Theerayut Toojinda ◽  
Piyada Theerakulpisut
Keyword(s):  
Salt Stress ◽  
Quantitative Trait Loci ◽  
Salt Tolerance ◽  
Drought Tolerance ◽  
Quantitative Trait ◽  
Photosynthetic Performance ◽  
Chromosome 8 ◽  
Recurrent Parent ◽  
Putative Gene ◽  
Trait Loci

Jasmine rice (Oryza sativa L.), or Khao Dawk Mali 105 (KDML105), is sensitive to drought and salt stresses. In this study, two improved drought-tolerant chromosome segment substitution lines (CSSLs) of KDML105 (CSSL8-103 and CSSL8-106), which carry drought tolerance quantitative trait loci (QTLs) on chromosome 8, were evaluated for salt tolerance and were compared with KDML105 and the QTL donor DH103, their parents and the salt-tolerant genotype Pokkali. After being subjected to salt stress for 6 days, 3-week-old seedlings of Pokkali showed the highest salt tolerance. Parameters related to photosynthesis were less inhibited in both CSSLs and the donor DH103, while these parameters were more severely damaged in the recurrent parent KDML105. Albeit a high ratio of Na+/K+, CSSLs and DH103 showed similar or higher contents of soluble sugar and activity of superoxide dismutase (SOD; EC1.15.1.1) compared with Pokkali, indicating possible mechanisms of either tissue or osmotic tolerance in these plants. The expression of a putative gene Os08g41990 (aminotransferase), which is located in DT-QTL and is involved in chlorophyll biosynthesis, significantly decreased under salt stress in KDML105 and CSSL8-103, while no obvious change in the expression of this gene was observed in Pokkali, DH103 and CSSL8-106. This gene might play a role in maintaining chlorophyll content under stress conditions. Taken together, the results of this study indicate that DT-QTL could contribute to the enhancement of photosynthetic performance in CSSL lines, leading to changes in their physiological ability to tolerate salinity stress.

Detection of quantitative trait loci for locomotion and osteochondrosis-related traits in Large White ✕ Meishan pigs

2003 ◽  
Vol 76 (2) ◽  
pp. 155-165 ◽  
Author(s):  
G.J. Lee ◽  
A.L. Archibald ◽  
G.B. Garth ◽  
A.S. Law ◽  
D. Nicholson ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Chromosome 1 ◽  
Chromosome 15 ◽  
Large White ◽  
Chromosome 13 ◽  
Genome Wide ◽  
A Genome ◽  
Trait Loci ◽  
Gait Score

AbstractData from the F2 generation of a Large White (LW) ✕ Meishan (MS) crossbred population were analysed to detect quantitative trait loci (QTL) for leg and gait scores, osteochondrosis and physis scores. Legs, feet and gait score were assessed in 308 F2 animals at 85 ( + 5) kg and osteochondrosis and physis scores were recorded for the right foreleg after slaughter. A genome scan was performed using 111 genetic markers chosen to span the genome that were genotyped on the F2 animals and their F1 parents and purebred grandparents. A QTL on chromosome 1 affecting gait score was significant at the genome-wide significance level. Additional QTL significant at the chromosome-wide 5% threshold level (approx. equivalent to the genome-wide suggestive level) were detected on chromosome 1 for front feet and back legs scores, on chromosome 13 for front legs and front feet scores, on chromosome 14 for front legs, front feet and back legs scores and on chromosome 15 for back feet score. None of the QTL for osteochondrosis score exceeded the chromosome-wide suggestive level, but one chromosome-wide QTL for physis score was found on chromosome 7. On chromosome 1, gait and front feet scores mapped to the middle of the chromosome and showed additive effects in favour of the LW alleles and no dominance effects. The QTL for back legs score mapped to the distal end of the chromosome and showed a dominant effect and no additive effect. On chromosomes 14 and 15, the LW allele was again superior to the MS allele. On chromosome 13, there were both additive and dominance effects in favour of the MS allele. The MS alleles on chromosome 13 may have potential for introgression into a commercial LW population. The other putative QTLs identified may have value in marker-assisted selection in LW or MS-synthetic populations.

Quantitative trait loci of barley malting quality trait components in the Stellar/01Ab8219 mapping population

2014 ◽  
Vol 34 (1) ◽  
pp. 59-73 ◽  
Author(s):  
Emir Islamovic ◽  
Donald E. Obert ◽  
Allen D. Budde ◽  
Mark Schmitt ◽  
Robert Brunick ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Mapping Population ◽  
Malting Quality ◽  
Quality Trait ◽  
Trait Loci

scholarly journals Mapping Quantitative Trait Loci for Resistance to Rice Blast

2011 ◽  
Vol 101 (2) ◽  
pp. 176-181 ◽  
Author(s):  
Y. Jia ◽  
G. Liu
Keyword(s):  
Quantitative Trait Loci ◽  
Phenotypic Variation ◽  
Quantitative Trait ◽  
Composite Interval Mapping ◽  
Rice Blast ◽  
Ssr Marker ◽  
Interval Mapping ◽  
Chromosome 8 ◽  
Chromosome 12 ◽  
Trait Loci

Quantitative trait loci (QTLs) conferring resistance to rice blast, caused by Magnaporthe oryzae, have been under-explored. In the present study, composite interval mapping was used to identify the QTLs that condition resistance to the 6 out of the 12 common races (IB1, IB45, IB49, IB54, IC17, and ID1) of M. oryzae using a recombinant inbred line (RIL) population derived from a cross of the moderately susceptible japonica cultivar Lemont with the moderately resistant indica cultivar Jasmine 85. Disease reactions of 227 F7 RILs were determined using a category scale of ratings from 0, representing the most resistant, to 5, representing the most susceptible. A total of nine QTLs responsive to different degrees of phenotypic variation ranging from 5.17 to 26.53% were mapped on chromosomes 3, 8, 9, 11, and 12: qBLAST3 at 1.9 centimorgans (cM) to simple sequence repeat (SSR) marker RM282 on chromosome 3 to IB45 accounting for 5.17%; qBLAST8.1 co-segregated with SSR marker RM1148 to IB49 accounting for 6.69%, qBLAST8.2 at 0.1 cM to SSR marker RM72 to IC17 on chromosome 8 accounting for 7.22%; qBLAST9.1 at 0.1 cM to SSR marker RM257 to IB54, qBLAST9.2 at 2.1 cM to SSR marker RM108, and qBLAST9.3 at 0.1 cM to SSR marker RM215 to IC17 on chromosome 9 accounting for 4.64, 7.62, and 4.49%; qBLAST11 at 2.2 cM to SSR marker RM244 to IB45 and IB54 on chromosome 11 accounting for 26.53 and 19.60%; qBLAST12.1 at 0.3 cM to SSR marker OSM89 to IB1 on chromosome 12 accounting for 5.44%; and qBLAST12.2 at 0.3 and 0.1 cM to SSR marker OSM89 to IB49 and ID1 on chromosome 12 accounting for 9.7 and 10.18% of phenotypic variation, respectively. This study demonstrates the usefulness of tagging blast QTLs using physiological races by composite interval mapping.

Quantitative trait loci for insulin-like growth factor I, leptin, thyroxine, and corticosterone in genetically heterogeneous mice

2003 ◽  
Vol 15 (1) ◽  
pp. 44-51 ◽  
Author(s):  
James M. Harper ◽  
Andrzej T. Galecki ◽  
David T. Burke ◽  
Stephen L. Pinkosky ◽  
Richard A. Miller
Keyword(s):  
Quantitative Trait Loci ◽  
Growth Factor ◽  
Quantitative Trait ◽  
Chromosome 1 ◽  
Insulin Like Growth Factor ◽  
Factor I ◽  
Genotype Information ◽  
Igf I ◽  
Trait Loci ◽  
Growth Factor I

Genotype information was collected at 87 loci in a group of 1,108 UM-HET3 mice bred as the progeny of [BALB/cJ × C57BL/6J]F1 mothers and [C3H/HeJ × DBA/2J]F1 fathers, for which thyroxine (T4), insulin-like growth factor I (IGF-I), and leptin levels had been measured at 4 and 15 mo of age. The data provided significant evidence for quantitative trait loci (QTL) modulating IGF-I levels on chromosomes 1, 3, 8, 10, and 17; for loci affecting T4 on chromosomes 4, 15, and 17; and for leptin on chromosome 3. Fecal levels of corticosterone at 17 mo of age were influenced by a QTL on chromosome 1. Nine other gene/hormone associations reached a nominal P < 0.01, providing suggestive but not statistical evidence for additional QTL. QTL with an influence on a given hormone were in nearly all cases additive, with little or no evidence for epistasis. Of the 12 strongest QTL, 5 had effects that were age dependent, having more effect in 15-mo-old than in 4-mo-old mice in all but one case; the other QTL had effects that were apparently age-independent. These results show that the genetic controls over late-life hormone levels are complex and dependent on effects of genes that act both early and late in the life course.

In silico mapping of quantitative trait loci (QTL) regulating the milk ionome in mice identifies a milk iron locus on chromosome 1

2018 ◽  
Vol 29 (9-10) ◽  
pp. 632-655 ◽  
Author(s):  
Darryl L. Hadsell ◽  
Louise A. Hadsell ◽  
Monique Rijnkels ◽  
Yareli Carcamo-Bahena ◽  
Jerry Wei ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
In Silico ◽  
Chromosome 1 ◽  
In Silico Mapping ◽  
Trait Loci

scholarly journals Quantitative Trait Loci (QTL) Analysis Reveals Both Broad-Spectrum and Isolate-Specific QTL for Scab Resistance in an Apple Progeny Challenged with Eight Isolates of Venturia inaequalis

2004 ◽  
Vol 94 (4) ◽  
pp. 370-379 ◽  
Author(s):  
F. Calenge ◽  
A. Faure ◽  
M. Goerre ◽  
C. Gebhardt ◽  
W. E. Van de Weg ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Resistance Gene ◽  
Resistance Genes ◽  
Quantitative Trait ◽  
Venturia Inaequalis ◽  
Scab Resistance ◽  
Breeding Programs ◽  
Apple Breeding ◽  
Trait Loci ◽  
New Races

The major scab resistance gene Vf, extensively used in apple breeding programs, was recently overcome by the new races 6 and 7 of the fungal pathogen Venturia inaequalis. New, more durable, scab resistance genes are needed in apple breeding programs. F1 progeny derived from the cross between partially resistant apple cv. Discovery and apple hybrid ‘TN10-8’ were inoculated in the greenhouse with eight isolates of V. inaequalis, including isolates able to overcome Vf. One major resistance gene, Vg, and seven quantitative trait loci (QTL) were identified for resistance to these isolates. Three QTL on linkage group (LG)12, LG13, and LG15 were clearly isolate-specific. Another QTL on LG5 was detected with two isolates. Three QTL on LG1, LG2, and LG17 were identified with most isolates tested, but not with every isolate. The QTL on LG2 displayed alleles conferring different specificities. This QTL co-localized with the major scab resistance genes Vr and Vh8, whereas the QTL on LG1 colocalized with Vf. These results contribute to a better understanding of the genetic basis of the V. inaequalis-Malus × domestica interaction.

scholarly journals Genetic mapping of two blood pressure quantitative trait loci on rat chromosome 1.

1996 ◽  
Vol 97 (3) ◽  
pp. 777-788 ◽  
Author(s):  
L Gu ◽  
H Dene ◽  
A Y Deng ◽  
B Hoebee ◽  
M T Bihoreau ◽  
...  
Keyword(s):  
Blood Pressure ◽  
Quantitative Trait Loci ◽  
Genetic Mapping ◽  
Quantitative Trait ◽  
Chromosome 1 ◽  
Trait Loci
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