Linkage and QTL mapping for <i>Sus scrofa</i> chromosome 7

Yue, Gen Hua; Stratil, A.; Čepica, S.; Schröffel, J.; Schröffelová, Daniela; Fontanesi, Luca; Cagnazzo, M.; Moser, G.; Bartenschlager, H.; Reiner, Gerald; Geldermann, H.

doi:10.1046/j.0931-2668.2003.00424.x

Cited by 30 publications

(23 citation statements)

References 38 publications

(34 reference statements)

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“…Among the 25 mapped SNPs, the largest number were on SSC1 (9), and the rest were distributed on SSC6 (6), SSC7 (3), SSC9 (2), SSC12 (2), SSC16 (2) and SSCX (1). The location of the SNPs on SSC1 and SSC7 were consistent previous reports [7,13], and the SNPs on SSC1 showed the greatest association with the trait. The top four significant SNPs were located on SSC1 (ALGA0006623, ALGA0006599, INRA0004898 and DRGA0001605).…”

Section: Resultssupporting

confidence: 78%

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Genome-wide association study of the backfat thickness trait in two pig populations

Zhu¹,

Max²,

Zhang³

et al. 2014

Front. Agr. Sci. Eng.

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Backfat thickness is a good predictor of carcass lean content, an economically important trait, and a main breeding target in pig improvement. In this study, the candidate genes and genomic regions associated with the tenth rib backfat thickness trait were identified in two independent pig populations, using a genome-wide association study of porcine 60K SNP genotype data applying the compressed mixed linear model (CMLM) statistical method. For each population, 30 most significant single-nucleotide polymorphisms (SNPs) were selected and SNP annotation implemented using Sus scrofa Build 10.2. In the first population, 25 significant SNPs were distributed on seven chromosomes, and SNPs on SSC1 and SSC7 showed great significance for fat deposition. The most significant SNP (ALGA0006623) was located on SSC1, upstream of the MC4R gene. In the second population, 27 significant SNPs were recognized by annotation, and 12 SNPs on SSC12 were related to fat deposition. Two haplotype blocks, M1GA0016251-MARC0075799 and ALGA0065251-MARC0014203-M1GA0016298-ALGA0065308, were detected in significant regions where the PIPNC1 and GH1 genes were identified as contributing to fat metabolism. The results indicated that genetic mechanism regulating backfat thickness is complex, and that genome-wide associations can be affected by populations with different genetic backgrounds.

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Section: Resultssupporting

confidence: 78%

“…gov/) functional annotation [7]. Two SNPs (H3GA00 20700 and MARC0069646) corresponded to a fat QTL region between TNFB (58 cM) and S0102 (70.1 cM) on SSC7 [13]. In Population 2 (Fig.…”

Section: Resultsmentioning

confidence: 99%

Genome-wide association study of the backfat thickness trait in two pig populations

Zhu¹,

Max²,

Zhang³

et al. 2014

Front. Agr. Sci. Eng.

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“…The additive effect of the QTL was 0.21 cm, with the Large White allele increasing the LEW. Although several studies reported that there were significant QTL affecting LP and LEA around this region using different experimental animals (Sato et al, 2003;Yue et al, 2003;Sanchez et al, 2006;Uemoto et al, 2008), no QTL for LP and LEA with significant level were detected in the present study. This phenomenon might be due to the differences of experimental designs as well as statistical models.…”

Section: Sw2155contrasting

confidence: 45%

“…Meishan allele caused decrease in CW and DP, which was consistent with breed phenotype. As carcass weight can reflect an indirect measure of dressing percentage, several studies identified significant QTL for carcass weight on SSC7 (Andersson-Eklund et al, 1998;Sato et al, 2003;Yue et al, 2003). A significant QTL affecting carcass weight between TNFB and S0102 was found in …”

Section: Sw2155mentioning

confidence: 99%

QTL analysis for carcass composition and meat quality traits on SSC7q1.1-q1.4 region in Large White × Meishan F<sub>2</sub> pigs

Huang¹,

Xu²,

Xiong³

et al. 2012

CZECH J ANIM SCI

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Significant QTL for carcass and meat quality traits on Sus scrofa chromosome 7 (SSC7) were detected in various Meishan derived resource populations, especially on q1.1-q1.4 region. In order to confirm and narrow the QTL in this region, seven single-nucleotide polymorphisms (SNPs) and one insertion or deletion located in eight genes (BTNL1, SLC39A7, COL21A1, PPARD, GLP1R, MDFI, GNMT, and PLA2G7) were included for linkage mapping in a Large White × Meishan resource population, as well as two flanking microsatellite markers (SW2155 and SW352). Ten chromosome-wise significant QTL and two suggestive QTL were found. QTL affecting carcass weight and dressing percentage were mapped within the interval BTNL1 and SLC39A7. QTL for skin weight and percentage, bone weight and percentage in carcass were located between the interval PPARD and GLP1R. QTL for fat weight and percentage in carcass were detected between GNMT and PLA2G7 genes, while QTL for loin muscle width was found between GLP1R and MDFI. The results of this study will help to facilitate identifying the causative molecular genetic variation in this region.

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“…M1 and M2 isoforms are encoded from the PKM (Pyruvate Kinase Muscle) gene (Noguchi, Inoue, and Tanaka, 1986) located in q12-q23 on porcine chromosome 7 (Davoli et al, 2002;Fontanesi et al, 2004), a region associated with highly reported to contain QTLs related to meat quality, fat deposition, and growth traits (Bidanel et al, 2001;Gilbert et al, 2007;Malek et al, 2001;Nezer et al, 2002;Ovilo et al, 2002;Reiner et al, 2002;Rohrer and Keele, 1998;Yue et al, 2003). PKM2 is a particularly promising positional candidate gene that plays a crucial role in porcine meat quality (Duan et al, 2009).…”

Section: Introductionmentioning

confidence: 99%

Association of a Pyruvate Kinase M2 (PKM2) Polymorphism with Back Fat Thickness in Berkshire Pigs

Cho¹,

Jeon²,

Lee³

et al. 2013

Journal of Animal Science and Technology

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Pyruvate kinase M2 (PKM2) is a key regulatory enzyme in the glycolytic pathway. It is one of four pyruvate kinase isoenzymes that widely differ in their occurrence according to tissue type. PKM2 is expressed in differentiated tissues, such as fat tissues, lung, as well as normal proliferating cells, embryonic cells, and tumor cells. The objective of this study was to investigate the association of single nucleotide polymorphisms (SNPs) in the PKM2 gene with meat quality traits in Berkshire pigs. We detected a SNP (g.34341 A>G) in the 3'UTR region of the PKM2 gene in 670 Berkshire pigs through DNA sequencing. Three genotypes, AA, AG, and GG, were found for this SNP, but based on an association analysis with meat quality traits, genotype AA was significantly associated with thicker back fat than genotype GG (p=0.027). Therefore, the g.34341 A>G polymorphism in the 3'UTR region of the porcine PKM2 gene could be applied in pig breeding programs to improve back fat thickness.

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Linkage and QTL mapping for Sus scrofa chromosome 7

Cited by 30 publications

References 38 publications

Genome-wide association study of the backfat thickness trait in two pig populations

Genome-wide association study of the backfat thickness trait in two pig populations

QTL analysis for carcass composition and meat quality traits on SSC7q1.1-q1.4 region in Large White × Meishan F<sub>2</sub> pigs

Association of a Pyruvate Kinase M2 (PKM2) Polymorphism with Back Fat Thickness in Berkshire Pigs

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