Corrigendum to: Genetic mapping of commercially significant starch characteristics in wheat crosses

2002 ◽  
Vol 53 (9) ◽  
pp. 1083
Author(s):  
I. L. Batey ◽  
M. J. Hayden ◽  
S. Cai ◽  
P. J. Sharp ◽  
G. B. Cornish ◽  
...  
Keyword(s):  
Starch Granule ◽  
Significant Quantitative Trait Locus ◽  
Ratio Analysis ◽  
Lod Score ◽  
Scanning Calorimetry ◽  
Starch Properties ◽  
Late Maturity ◽  
Trait Locus ◽  
Starch Gelatinisation ◽  
Swelling Volume

Starch properties were measured on the doubled haploid progeny of 2 crosses, one between Cranbrook and Halberd and the other between CD87 and Katepwa. Properties studied included starch peak and final viscosity measured by Rapid Visco Analyser, starch granule size distribution measured by laser light scattering, starch gelatinisation temperature by differential scanning calorimetry, and flour swelling volume. In the Cranbrook Halberd cross (samples from 2 environments), a highly significant quantitative trait locus (QTL) was located on chromosome 4A for both starch peak viscosity and starch/flour swelling volume, centred around the Wx-B1 locus. In previous studies, this locus has been found to be linked to Japanese noodle quality. The increases in starch peak viscosity and flour swelling volume are derived from the Halberd parent, consistent with the fact that Halberd is null for the Wx-B1 locus on chromosome 4A and is missing the respective granule-bound starch synthase protein, whereas Cranbrook is a wheat line carrying the normal 3 Wx loci. The final starch viscosity also showed an association with the Wx-B1 locus. In the CD87 Katepwa cross, the progeny showed an association between peak viscosity and a marker on chromosome 7A. This appeared to be near the Wx-A1 locus. In some experiments, flour viscosity showed a highly significant QTL on chromosome 7B, apparently at the same locus as the late maturity - amylase derived from the Cranbrook parent. Starch gelatinisation onset temperature indicated a significant QTL on chromosomes 2B and 7A (LOD = 2.58 and 3.66, respectively, in interval analyses). Starch gelatinisation peak temperatures indicated a QTL on chromosome 7A, which, although not in the significant (P = 0.05) class based on regression analyses, indicated a LOD score of 3.06 in interval analyses. Heat of gelatinisation (H) indicated a suggestive QTL (LRS = 14.5 with a threshold of 14.7 for P < 0.05, LOD = 2.65 for interval analysis), on chromosome 4A, at the Wx-B1 locus with an increased effect coming from the Halberd parent. The A:B granule ratio analysis indicated a significant QTL on chromosome 4B, but this was not observed in all environments and may be due to the fact that the QTL corresponded to the position of a major QTL controlling plant growth.

Genetic mapping of commercially significant starch characteristics in wheat crosses

2001 ◽  
Vol 52 (12) ◽  
pp. 1287 ◽  
Author(s):  
I. L. Batey ◽  
M. J. Hayden ◽  
S. Cai ◽  
P. J. Sharp ◽  
G. B. Cornish ◽  
...  
Keyword(s):  
Starch Granule ◽  
Significant Quantitative Trait Locus ◽  
Ratio Analysis ◽  
Lod Score ◽  
Scanning Calorimetry ◽  
Starch Properties ◽  
Late Maturity ◽  
Trait Locus ◽  
Starch Gelatinisation ◽  
Swelling Volume

Starch properties were measured on the doubled haploid progeny of 2 crosses, one between Cranbrook and Halberd and the other between CD87 and Katepwa. Properties studied included starch peak and final viscosity measured by Rapid Visco Analyser, starch granule size distribution measured by laser light scattering, starch gelatinisation temperature by differential scanning calorimetry, and flour swelling volume. In the Cranbrook Halberd cross (samples from 2 environments), a highly significant quantitative trait locus (QTL) was located on chromosome 4A for both starch peak viscosity and starch/flour swelling volume, centred around the Wx-B1 locus. In previous studies, this locus has been found to be linked to Japanese noodle quality. The increases in starch peak viscosity and flour swelling volume are derived from the Halberd parent, consistent with the fact that Halberd is null for the Wx-B1 locus on chromosome 4A and is missing the respective granule-bound starch synthase protein, whereas Cranbrook is a wheat line carrying the normal 3 Wx loci. The final starch viscosity also showed an association with the Wx-B1 locus. In the CD87 Katepwa cross, the progeny showed an association between peak viscosity and a marker on chromosome 7A. This appeared to be near the Wx-A1 locus. In some experiments, flour viscosity showed a highly significant QTL on chromosome 7B, apparently at the same locus as the late maturity - amylase derived from the Cranbrook parent. Starch gelatinisation onset temperature indicated a significant QTL on chromosomes 2B and 7A (LOD = 2.58 and 3.66, respectively, in interval analyses). Starch gelatinisation peak temperatures indicated a QTL on chromosome 7A, which, although not in the significant (P = 0.05) class based on regression analyses, indicated a LOD score of 3.06 in interval analyses. Heat of gelatinisation (H) indicated a suggestive QTL (LRS = 14.5 with a threshold of 14.7 for P < 0.05, LOD = 2.65 for interval analysis), on chromosome 4A, at the Wx-B1 locus with an increased effect coming from the Halberd parent. The A:B granule ratio analysis indicated a significant QTL on chromosome 4B, but this was not observed in all environments and may be due to the fact that the QTL corresponded to the position of a major QTL controlling plant growth.

Serum alkaline phosphatase activity is regulated by a chromosomal region containing the alkaline phosphatase 2 gene (Akp2) in C57BL/6J and DBA/2J mice

2005 ◽  
Vol 23 (3) ◽  
pp. 295-303 ◽  
Author(s):  
Jennifer E. Foreman ◽  
David A. Blizard ◽  
Glenn Gerhard ◽  
Holly A. Mack ◽  
Dean H. Lang ◽  
...  
Keyword(s):  
Alkaline Phosphatase ◽  
Chromosomal Region ◽  
Serum Alkaline Phosphatase ◽  
Inbred Strains ◽  
Lod Score ◽  
Serum Alkaline Phosphatase Activity ◽  
Single Nucleotide ◽  
Significance Level ◽  
Hepatic Expression ◽  
Trait Locus

Quantitative trait locus (QTL) analyses were conducted to identify chromosomal regions that contribute to variability in serum alkaline phosphatase (AP) enzyme activity in mice derived from the C57BL/6J (B6) and DBA/2J (D2) inbred strains. Serum AP was measured in 400 B6D2 F2 mice at 5 mo and 400 B6D2 F2 mice at 15 mo of age that were genotyped at 96 microsatellite markers, and in 19 BXD recombinant inbred (RI) strains at 5 mo of age. A QTL on the distal end of chromosome 4 was present in all sex- and age-specific analyses with a peak logarithm of odds (LOD) score of 20.36 at 58.51 cM. The Akp2 gene, which encodes the major serum AP isozyme, falls within this QTL region at 70.2 cM where the LOD score reached 13.2 (LOD significance level set at 4.3). Serum AP activity was directly related to the number of D2 alleles of a single nucleotide polymorphism in the 5′-flanking region of the Akp2 gene, although no strain-related differences in hepatic expression of Akp2 RNA were found. A variety of sequence polymorphisms in this chromosomal region could be responsible for the differences in serum AP activity; the Akp2 gene, however, with several known amino acid substitutions between protein sequences of the B6 and D2 strains, is a leading candidate.

scholarly journals Identification of Neuronal Enhancers of the Proopiomelanocortin Gene by Transgenic Mouse Analysis and Phylogenetic Footprinting

2005 ◽  
Vol 25 (8) ◽  
pp. 3076-3086 ◽  
Author(s):  
Flávio S. J. de Souza ◽  
Andrea M. Santangelo ◽  
Viviana Bumaschny ◽  
María Elena Avale ◽  
James L. Smart ◽  
...  
Keyword(s):  
Energy Homeostasis ◽  
Significant Quantitative Trait Locus ◽  
Phylogenetic Footprinting ◽  
Transcriptional Unit ◽  
Human Populations ◽  
Chromosome 2 ◽  
Loss Of Function ◽  
Trait Locus ◽  
Genomic Regions ◽  
Arcuate Neurons

ABSTRACT The proopiomelanocortin (POMC) gene is expressed in the pituitary and arcuate neurons of the hypothalamus. POMC arcuate neurons play a central role in the control of energy homeostasis, and rare loss-of-function mutations in POMC cause obesity. Moreover, POMC is the prime candidate gene within a highly significant quantitative trait locus on chromosome 2 associated with obesity traits in several human populations. Here, we identify two phylogenetically conserved neuronal POMC enhancers designated nPE1 (600 bp) and nPE2 (150 bp) located approximately 10 to 12 kb upstream of mammalian POMC transcriptional units. We show that mouse or human genomic regions containing these enhancers are able to direct reporter gene expression to POMC hypothalamic neurons, but not the pituitary of transgenic mice. Conversely, deletion of nPE1 and nPE2 in the context of the entire transcriptional unit of POMC abolishes transgene expression in the hypothalamus without affecting pituitary expression. Our results indicate that the nPEs are necessary and sufficient for hypothalamic POMC expression and that POMC expression in the brain and pituitary is controlled by independent sets of enhancers. Our study advances the understanding of the molecular nature of hypothalamic POMC neurons and will be useful to determine whether polymorphisms in POMC regulatory regions play a role in the predisposition to obesity.

Genome-Wide Association Study of Piscine Myocarditis Virus (PMCV) Resistance in Atlantic Salmon (Salmo salar)

2019 ◽  
Vol 110 (6) ◽  
pp. 720-726 ◽  
Author(s):  
Borghild Hillestad ◽  
Hooman K Moghadam
Keyword(s):  
Genetic Variation ◽  
Atlantic Salmon ◽  
Genome Wide Association Study ◽  
Snp Array ◽  
Significant Quantitative Trait Locus ◽  
Viral Disease ◽  
Breeding Programs ◽  
Immunological Mechanisms ◽  
Trait Locus ◽  
Immune Related Genes

Abstract Cardiomyopathy syndrome is a severe, viral disease of Atlantic salmon that mostly affects farmed animals during their late production stage at sea. Caused by piscine myocarditis virus (PMCV), over the past few years outbreaks due to this disease have resulted in significant losses to the aquaculture industry. However, there is currently no vaccine that has proven effective against this virus. In this study, using a challenge model, we investigated the genetic variation for resistance to PMCV, by screening a large number of animals using a 55 K SNP array. In particular, we aimed to identify genetic markers that are tightly linked to higher disease resistance and can potentially be used in breeding programs. Using genomic information, we estimated a heritability of 0.51 ± 0.06, suggesting that resistance against this virus, to a great extent, is controlled by genetic factors. Through association analysis, we identified a significant quantitative trait locus (QTL) on chromosome 27, explaining approximately 57% of the total additive genetic variation. The region harboring this QTL contains various immune-related candidate genes, many of which have previously been shown to have a different expression profile between the naïve and infected animals. We also identified a suggestive association on chromosome 12, with the QTL linked markers located in 2 putatively immune-related genes. These results are of particular interest, as they can readily be implemented into breeding programs, can further assist in fine-mapping the causative mutations, and help in better understanding the biology of the disease and the immunological mechanisms underlying resistance against PMCV.

scholarly journals Understanding the Properties of Starch in Potatoes (Solanum tuberosum var. Agria) after Being Treated with Pulsed Electric Field Processing

Foods ◽  
2019 ◽  
Vol 8 (5) ◽  
pp. 159 ◽  
Author(s):  
Setya B.M. Abduh ◽  
Sze Ying Leong ◽  
Dominic Agyei ◽  
Indrawati Oey
Keyword(s):  
Solanum Tuberosum ◽  
Electric Field ◽  
Light Microscopy ◽  
Electric Fields ◽  
Potato Starch ◽  
Potato Tissue ◽  
Scanning Calorimetry ◽  
Starch Properties ◽  
Polarised Light

The purpose of this study was to investigate the properties of starch in potatoes (Solanum tuberosum cv. Agria) after being treated with pulsed electric fields (PEF). Potatoes were treated at 50 and 150 kJ/kg specific energies with various electric field strengths of 0, 0.5, 0.7, 0.9 and 1.1 kV/cm. Distilled water was used as the processing medium. Starches were isolated from potato tissue and from the PEF processing medium. To assess the starch properties, various methods were used, i.e., the birefringence capability using a polarised light microscopy, gelatinisation behaviour using hot-stage light microscopy and differential scanning calorimetry (DSC), thermal stability using thermogravimetry (TGA), enzyme susceptibility towards α-amylase and the extent of starch hydrolysis under in vitro simulated human digestion conditions. The findings showed that PEF did not change the properties of starch inside the potatoes, but it narrowed the temperature range of gelatinisation and reduced the digestibility of starch collected in the processing medium. Therefore, this study confirms that, when used as a processing aid for potato, PEF does not result in detrimental effects on the properties of potato starch.

Identification of a QTL on chromosome 1 for impaired autoregulation of RBF in fawn-hooded hypertensive rats

2006 ◽  
Vol 290 (5) ◽  
pp. F1213-F1221 ◽  
Author(s):  
Bernardo López ◽  
Robert P. Ryan ◽  
Carol Moreno ◽  
Albert Sarkis ◽  
Jozef Lazar ◽  
...  
Keyword(s):  
Genetic Background ◽  
Significant Quantitative Trait Locus ◽  
Chromosome 1 ◽  
Brown Norway ◽  
Genetic Linkage Analysis ◽  
Hypertensive Rats ◽  
Congenic Strains ◽  
Protein Excretion ◽  
Trait Locus ◽  
Consomic Strain

The present study evaluated whether the impairment in autoregulation of renal blood flow (RBF) in the fawn-hooded Hypertensive (FHH) rat colocalizes with the Rf-1 region on chromosome 1 that has been previously linked to the development of proteinuria in this strain. Autoregulation of RBF was measured in FHH and a consomic strain (FHH.1BN) in which chromosome 1 from the Brown-Norway (BN) rat was introgressed into the FHH genetic background. The autoregulation indexes (AI) averaged 0.80 ± 0.08 in the FHH and 0.19 ± 0.05 in the FHH.1BN rats. We next performed a genetic linkage analysis for autoregulation of RBF in 85 F2 rats generated from a backcross of FHH.1BN consomic and FHH rats. The results revealed a significant quantitative trait locus (QTL) with a peak logarithm of the odds score of 6.3 near marker D1Rat376. To confirm the existence of this QTL, five overlapping congenic strains were created that spanned the region from markers D1Rat234 to D1Mit14. Transfer of a region of BN chromosome 1 from markers D1Mgh13 to D1Rat89 into the FHH genetic background improved autoregulation of RBF (AI = 0.23 ± 0.04) and reduced protein excretion. In contrast, RBF was poorly autoregulated and the rats were not protected from proteinuria in congenic strains in which other regions of chromosome 1 that exclude the D1Rat376 marker were transferred. These results indicate that there is a gene(s) that influences autoregulation of RBF and proteinuria between markers D1Mgh13 and D1Rat89 on chromosome 1 that lies within the confidence interval of the Rf-1 QTL previously linked to the development of proteinuria in FHH rats.

scholarly journals Genomic Locus Modulating IOP in the BXD RI Mouse Strains

2017 ◽  
Author(s):  
Rebecca King ◽  
Ying Li ◽  
Jiaxing Wang ◽  
Felix L. Struebing ◽  
Eldon E. Geisert
Keyword(s):  
Candidate Genes ◽  
Quantitative Trait ◽  
Significant Quantitative Trait Locus ◽  
Interval Mapping ◽  
Mouse Strains ◽  
Genomic Locus ◽  
Quantitative Trait Analysis ◽  
Significant Locus ◽  
Trait Locus ◽  
Different Strains

AbstractPurposeIntraocular pressure (IOP) is the primary risk factor for developing glaucoma. The present study examines genomic contribution to the normal regulation of IOP in the mouse.MethodsThe BXD recombinant inbred (RI) strain set was used to identify genomic loci modulating IOP. We measured the IOP from 532 eyes from 33 different strains. The IOP data will be subjected to conventional quantitative trait analysis using simple and composite interval mapping along with epistatic interactions to define genomic loci modulating normal IOP.ResultsThe analysis defined one significant quantitative trait locus (QTL) on Chr.8 (100 to 106 Mb). The significant locus was further examined to define candidate genes that modulate normal IOP. There are only two good candidate genes within the 6 Mb over the peak, Cdh8 (Cadherin 8) and Cdh11 (Cadherin 11). Expression analysis on gene expression and immunohistochemistry indicate that Cdh11 is the best candidate for modulating the normal levels of IOP.ConclusionsWe have examined the genomic regulation of IOP in the BXD RI strain set and found one significant QTL on Chr. 8. Within this QTL that are two potential candidates for modulating IOP with the most likely gene being Cdh11.

Quantitative trait locus analysis of late maturity a-amylase in wheat using the doubled haploid population Cranbrook Halberd

2001 ◽  
Vol 52 (12) ◽  
pp. 1267 ◽  
Author(s):  
K. Mrva ◽  
D. J. Mares
Keyword(s):  
Quantitative Trait Locus ◽  
Doubled Haploid ◽  
Quantitative Trait ◽  
Triticum Aestivum L ◽  
Temperature Treatment ◽  
Doubled Haploid Population ◽  
Cool Temperature ◽  
Haploid Population ◽  
Late Maturity ◽  
Trait Locus

Mapping of the late maturity α-amylase (LMA) gene using quantitative trait locus (QTL) analysis represents an important step in identification of potential molecular markers that would greatly improve efficiency and accuracy of screening for LMA. QTL controlling the expression of LMA in wheat were detected in a doubled haploid (DH) cross/population derived from wheat (Triticum aestivum L. em. Thell) cultivars Cranbrook (LMA source) and Halberd (non-LMA). The DH population and parents were sown in replicated trials at Narrabri with sowing times differing by 2 weeks. Cool temperature treatment of detached tillers was used to induce expression of LMA in lines carrying the defect. The number of grains in ripe, treated tillers that contained high pI (malt, germination type) α-amylase isozymes was measured using an ELISA antibody kit highly specific for high pI isozymes. QTL analyses were conducted separately for each sowing, but results from both sowings were consistent and indicated that there was a highly significant (P < 0.001) QTL on the long arm of chromosome 7B (accounting for 31% of the variation in the first experiment), with Cranbrook contributing the higher value allele. A second QTL that accounted for 13% of the variation was found close to the centromere on chromosome 3B. Although it was less important than the QTL on 7B it was nevertheless still significant (P < 0.05).

scholarly journals The Genetic Basis of Plasma Variation in Adiponectin, a Global Endophenotype for Obesity and the Metabolic Syndrome

2001 ◽  
Vol 86 (9) ◽  
pp. 4321-4325 ◽  
Author(s):  
Anthony G. Comuzzie ◽  
Tohru Funahashi ◽  
Gabriele Sonnenberg ◽  
Lisa J. Martin ◽  
Howard J. Jacob ◽  
...  
Keyword(s):  
Quantitative Trait Locus ◽  
Quantitative Trait Loci ◽  
Genetic Analysis ◽  
Quantitative Trait ◽  
European Ancestry ◽  
Chromosome 5 ◽  
Lod Score ◽  
The Metabolic Syndrome ◽  
Trait Loci ◽  
Trait Locus

Here we present the first genetic analysis of adiponectin levels, a newly identified adipocyte-derived protein. Recent work has suggested that adiponectin may play a role in mediating the effects of body weight as a risk factor for coronary artery disease. For this analysis we assayed serum levels of adiponectin in 1100 adults of predominantly northern European ancestry distributed across 170 families. Quantitative genetic analysis of adiponectin levels detected an additive genetic heritability of 46%. The maximum LOD score detected in a genome wide scan for adiponectin levels was 4.06 (P = 7.7 × 10−6), 35 cM from pter on chromosome 5. The second largest LOD score (LOD = 3.2; P = 6.2 × 10−5) was detected on chromosome 14, 29 cM from pter. The detection of a significant linkage with a quantitative trait locus on chromosome 5 provides strong evidence for a replication of a previously reported quantitative trait locus for obesity-related phenotypes. In addition, several secondary signals offer potential evidence of replications for additional previously reported obesity-related quantitative trait loci on chromosomes 2 and 10. Not only do these results identify quantitative trait loci with significant effects on a newly described, and potentially very important, adipocyte-derived protein, they also reveal the emergence of a consistent pattern of linkage results for obesity-related traits across a number of human populations.

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