A comprehensive linkage map and QTL map for carcass traits in a cross between Giant Grey and New Zealand White rabbits

Sternstein, I.; Reißmann, Monika; Maj, Dorota; Bieniek, J.; Brockmann, Gudrun A.

doi:10.1186/s12863-015-0168-1

Cited by 9 publications

(11 citation statements)

References 44 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…The co-localization of 24 differentially expressed transcripts for MYB , bHLH , serine threonine kinases, RING zinc finger proteins with mQTL reported for zinc, zinc and phytate corroborated with the up regulated transcripts for phosphate transporters/ translocators in the landraces [ 59 ].…”

Section: Discussionmentioning

confidence: 82%

See 1 more Smart Citation

Transporter genes identified in landraces associated with high zinc in polished rice through panicle transcriptome for biofortification

et al. 2018

View full text Add to dashboard Cite

Polished rice is poor source of micronutrients, however wide genotypic variability exists for zinc uptake and remobilization and zinc content in brown and polished grains in rice. Two landraces (Chittimutyalu and Kala Jeera Joha) and one popular improved variety (BPT 5204) were grown under zinc sufficient soil and their analyses showed high zinc in straw of improved variety, but high zinc in polished rice in landraces suggesting better translocation ability of zinc into the grain in landraces. Transcriptome analyses of the panicle tissue showed 41182 novel transcripts across three samples. Out of 1011 differentially expressed exclusive transcripts by two landraces, 311 were up regulated and 534 were down regulated. Phosphate transporter-exporter (PHO), proton-coupled peptide transporters (POT) and vacuolar iron transporter (VIT) showed enhanced and significant differential expression in landraces. Out of 24 genes subjected to quantitative real time analyses for confirmation, eight genes showed significant differential expression in landraces. Through mapping, six rice microsatellite markers spanning the genomic regions of six differentially expressed genes were validated for their association with zinc in brown and polished rice using recombinant inbred lines (RIL) of BPT 5204/Chittimutyalu. Thus, this study reports repertoire of genes associated with high zinc in polished rice and a proof concept for deployment of transcriptome information for validation in mapping population and its use in marker assisted selection for biofortification of rice with zinc.

show abstract

Section: Discussionmentioning

confidence: 82%

“…The differentially expressed transcripts among the genotypes were mapped to the regions of metaQTLs (mQTLs) reported for iron and zinc content in rice for knowing their co-localization with QTL [ 59 ].…”

Section: Methodsmentioning

confidence: 99%

Transporter genes identified in landraces associated with high zinc in polished rice through panicle transcriptome for biofortification

et al. 2018

View full text Add to dashboard Cite

show abstract

“…However, we think that Bonferroni penalizes gene candidate studies too harshly, and the SNP was replicated in independent cohorts. Bonferroni is a useful multivariable test correction in several situations; however, the Bonferroni method is conservative and has low power (26, 27). It has been suggested that Bonferroni is a useful method in situations in which several subgroups of analysis have been tested, such as multi-stratification of the cohort (selection of women only, younger subjects only, etc.)…”

Section: Limitationsmentioning

confidence: 99%

GRECOS Project (Genotyping Recurrence Risk of Stroke)

Fernández‐Cadenas

Mendióroz

Giralt

et al. 2017

Stroke

View full text Add to dashboard Cite

Background and Purpose Vascular recurrence occurs in 11% of patients during the first year after ischemic stroke (IS) or transient ischemic attack (TIA). Clinical scores do not predict the whole vascular recurrence risk, therefore we aimed to find genetic variants associated with recurrence that might improve the clinical predictive models in IS. Methods We analyzed 256 polymorphisms from 115 candidate genes in three patient cohorts comprising 4,482 IS or TIA patients. The discovery cohort was prospectively recruited and included 1,494 patients, 6.2% of them developed a new IS during the first year of follow-up. Replication analysis was performed in 2,988 patients using SNPlex or HumanOmni1-Quad technology. We generated a predictive model using Cox regression (GRECOS score), and generated risk groups using a classification tree method. Results The analyses revealed that rs1800801 in the MGP gene (HR: 1.33, p= 9×10−03), a gene related to artery calcification, was associated with new IS during the first year of follow-up. This polymorphism was replicated in a Spanish cohort (n=1.305), however it was not significantly associated in a North American cohort (n=1.683). The GRECOS score predicted new IS (p= 3.2×10−09) and could classify patients, from low risk of stroke recurrence (1.9%) to high risk (12.6%). Moreover, the addition of genetic risk factors to the GRECOS score improves the prediction compared to previous SPI-II score (p=0.03). Conclusions The use of genetics could be useful to estimate vascular recurrence risk after IS. Genetic variability in the MGP gene was associated with vascular recurrence in the Spanish population.

show abstract

“…The developments of microsatellite marker maps became available to estimate additive genetic effects of markers and were routinely used, for example, for Quantitative Locus (QTL) detection in most livestock species. This resulted in a breakthrough in genetic diversity analyses [20][21][22][23].…”

Section: Genomic Tools In Livestock Genetic Resources Conservationmentioning

confidence: 99%

Genomic Tools for Effective Conservation of Livestock Breed Diversity

2019

View full text Add to dashboard Cite

Human concern about the status of genetic diversity in livestock breeds and their conservation has increased, as intense selection and reduced population sizes in many breeds has caused losses on the global livestock genetic biodiversity. Traditionally, pedigree data provided by the breeders were used to estimate genetic diversity parameters, but over the past decades, technology has made possible the development of genomic markers. The result has been new opportunities to estimate genetic diversity in more detail, and to improve selection as well as prioritizing animals for conservation of genetic resources. The aim of the review is to summarize the evolution of livestock genomic markers and to explore the potential of the newest high-throughput technologies for estimation and conservation of livestock genetic diversity. More accurate diversity parameters are observed when genomic information is used for selection decisions instead of the traditional estimates using pedigree data. It is also possible to estimate additional parameters such as linkage disequilibrium to calculate effective population size or to minimize the genetic relatedness among the selected individuals based on runs of homozygosity. For long-term perspectives, new methods on genome editing are considered as new perspectives to reach a genetic diversity balance.

show abstract

A comprehensive linkage map and QTL map for carcass traits in a cross between Giant Grey and New Zealand White rabbits

Cited by 9 publications

References 44 publications

Transporter genes identified in landraces associated with high zinc in polished rice through panicle transcriptome for biofortification

Transporter genes identified in landraces associated with high zinc in polished rice through panicle transcriptome for biofortification

GRECOS Project (Genotyping Recurrence Risk of Stroke)

Genomic Tools for Effective Conservation of Livestock Breed Diversity

Contact Info

Product

Resources

About