« Home « Kết quả tìm kiếm

Genomic regions

Tìm thấy 19+ kết quả cho từ khóa "Genomic regions"

“Integrative genomic analysis of the bioprospection of regulators and accessory enzymes associated with cellulose degradation in a filamentous fungus (Trichoderma harzianum)”

tailieu.vn

For the T. virens Gv29–8 (TvGv29–8), the similarity was 86.55%, and for T. 2 Functional annotation of the genes predicted in the genomic regions of T.

Assessing genomic diversity and signatures of selection in Jiaxian Red cattle using whole-genome sequencing data

tailieu.vn

Assessing genomic diversity and signatures of selection in Jiaxian Red cattle using. Using whole-genome sequencing (WGS) data of 30 animals from the core breeding farm, we investigated the genetic diversity, population structure and genomic regions under selection of Jiaxian Red cattle. Furthermore, we used 131 published genomes of world-wide cattle to characterize the genomic variation of Jiaxian Red cattle..

Genotype-by-environment interaction in Holstein heifer fertility traits using singlestep genomic reaction norm models

tailieu.vn

Candidate genomic regions of the slope term have been previously linked to a variety of trait groups, in- cluding luteal activity, body weight, stillbirth, and many milk-related QTLs.

Reliability of genomic variants across different next-generation sequencing platforms and bioinformatic processing pipelines

tailieu.vn

Furthermore, we investigated the concordance in introns, exons, intergenic regions, repeat elements annotated with the RepeatMasker software, and bins with varying GC content. of variants in the respective experimental setups and all possible intersections. Subsequently, we analyzed the concordance of different setups within genomic regions, including exons, introns, repetitive elements, or genomic bins with varying GC content (Fig.

Genomic analysis of Spanish wheat landraces reveals their variability and potential for breeding

tailieu.vn

Fixed genomic regions in the reference varieties were identified by performing a scan of the Hs values along the different chromosomes. Excel file with the description of the accessions analyzed, passport data, population according to fastSTRUCTURE analysis, HMW-GS and VRN-A1 alleles. Durum wheat. Figure showing the genetic diversity (Hs) distribution across the A and B genomes in the different durum wheat subspecies..

Novel genomic resources for shelled pteropods: A draft genome and target capture probes for Limacina bulimoides, tested for cross-species relevance

tailieu.vn

The combined use of the transcriptome and fragmented genome allowed us to identify the expressed genomic regions reliably and in- clude intronic regions, which may have contributed to the probe hybridisation success [59]. The target capture was highly successful in the focal spe- cies L. The number of SNPs recovered (Table 4) and percentage of properly paired reads mapping uniquely to the tar- gets (Table 3) are comparable to the results from a similar protocol on copepods [26]..

Genomic analysis of worldwide sheep breeds reveals PDGFD as a major target of fat-tail selection in sheep

tailieu.vn

To accurately map the candidate gene(s) underlying the fat tail phenotype of sheep, herein we comprehensively an- alyzed genomic variation data from a large cohort of sheep breeds with different tail types from around the world and integrated two different selection tests to detect genomic regions with signals of selection.

Genomic and transcriptomic insights into Raffaelea lauricola pathogenesis

tailieu.vn

A comparison of the genomic regions up and downstream of this missing cluster in the R. aguacate genome or present in dispersed, non-clustered regions of the genome (Fig. Cluster 7 represents an even more extreme example of an inser- tion or deletion event in which not only were the eight genes predicted for Cluster 7 missing from the syntenic region of the R. aguacate genome, but also an additional 11 genes up- and five genes down-stream of the cluster were absent (Fig.

PaCBAM: Fast and scalable processing of whole exome and targeted sequencing data

tailieu.vn

Conclusions: PaCBAM is a fast and scalable tool designed to process genomic regions from NGS data files and generate coverage and pileup comprehensive statistics for downstream analysis. Genomic region and single-base level data retrieval and processing, which represent fundamental steps in genomic analyses such as copy number estimation, variant calling and quality control, still constitute one of the major bot- tlenecks in NGS data analysis.

Ancient evolutionary signals of proteincoding sequences allow the discovery of new genes in the Drosophila melanogaster genome

tailieu.vn

AnABlast: re-searching for protein-coding sequences in genomic regions

Population analysis of the Korean native duck using whole-genome sequencing data

tailieu.vn

Finally, highly differentiated genomic regions among Korean native duck and other duck breeds were identified, and functions of genes in those regions were examined.. Conclusions: This is the first study to compare the population of Korean native duck with those of other duck breeds by using whole-genome sequencing data. Our findings can be used to expand our knowledge of genomic characteristics of Korean native duck, and broaden our understanding of duck breeds..

Detection of CRISPR-mediated genome modifications through altered methylation patterns of CpG islands

tailieu.vn

The regions with methylation patterns modified by the incorporation of homology arms within the CGI and upstream of the CGI are shaded in a light blue background. 5b illustrates the comparison of the modified region to flanking endogenous genomic regions by displaying the variance of methylation patterns for 7000 bp upstream and downstream of the CGI.

Evaluation of genetic diversity, agronomic traits, and anthracnose resistance in the NPGS Sudan Sorghum Core collection

tailieu.vn

Each of these genome regions explains 1–4% of the observed variation,. Amongst the multiple candidate genes within associated genomic regions, one locus in chromosome 6 constituted by the SNP S6_51222126 is lo- cated 2.4 kb upstream of the gene Sobic006G151500 that encode a cytokinin dehydrogenase. One genomic re- gion in chromosome 4 explains 28% of the observed variation and is constituted by the SNP S4_49996017 lo- cated 3.5 kb upstream of the gene Sobic04G157700.

Investigating the impact of reference assembly choice on genomic analyses in a cattle breed

tailieu.vn

The CLR test revealed 40 and 33 genomic regions (merged top 0.1% win- dows) encompassing ∼ 2.5 and ∼ 2.48 Mb, and 29 and 27 genes, respectively, from the ARS-UCD1.2 and the UOA_Angus_1 alignments (Fig. CLR UOA_Angus_1. UOA_Angus CLR UOA_Angus_1 = 657). A putative selective sweep on chromosome 13 was identified using the ARS-UCD1.2 but not the UOA_Angus_1 assembly. Selection signal distribution for both ARS-UCD1.2 (top panel) and UOA_Angus_1 assemblies (bottom panel).

ATAC-Seq identifies regions of open chromatin in the bronchial lymph nodes of dairy calves experimentally challenged with bovine respiratory syncytial virus

tailieu.vn

The identification of the re- gions of chromatin that are open in respiratory tissues during BRSV infection will indicate the genomic regions that are transcriptionally active during infection.

Breeding history and candidate genes responsible for black skin of Xichuan blackbone chicken

tailieu.vn

Gene annotation of genomic regions with strong selective sweep signals in Xichuan black- bone chickens.. Difference in expression for dorsal skin between black skin (BS) and yellow skin (YS) in Xichuan black-bone chickens by RNA-Seq.. XBC: Xichuan black-bone chicken. YC, CZ, WL, FL, YF, YW and YT collected the samples and performed most of the experiments.

Multi-trait GWAS using imputed highdensity genotypes from whole-genome sequencing identifies genes associated with body traits in Nile tilapia

tailieu.vn

Table 3 Genomic regions and the closest candidate genes for the top five lead SNPs associated with body traits based on multi- trait GWAS in Nile tilapia. Table 3 Genomic regions and the closest candidate genes for the top five lead SNPs associated with body traits based on multi- trait GWAS in Nile tilapia (Continued). 2 Manhattan plot for multi-trait GWAS (mtGWAS) for eight body traits in Nile tilapia. Manhattan plots of SNPs associated with: a Average daily gain.

DNA methylation and its effects on gene expression during primary to secondary growth in poplar stems

tailieu.vn

The methylation levels of each of the three methylation types, CG, CHG, and CHH, were calculated in the whole genome, in each chromosome, and in different genomic regions. For all genic regions, methylation profiling of gene bodies and 2 kb flanking regions (both sides of the genes) were plot- ted based on the average methylation levels of different sliding windows..

Whole genome analysis of the koa wilt pathogen (Fusarium oxysporum f. sp. koae) and the development of molecular tools for early detection and monitoring

tailieu.vn

To increase the likelihood of developing a pathogen- specific primer, two approaches were used to classify genomic regions and genes unique to Fo koae 44 for PCR primer development. First, unique genomic regions, that may be non-coding DNA sequences, were identified in Fo koae 44. Second, predicted transcripts unique to Fo koae 44 were identified.. To identify unique genomic regions, Fo koae 44 chromo- somes were aligned to chromosomes of Fo 170, other Fusarium spp., and F.

Comparative genomic analysis of the secondary flagellar (flag-2) system in the order Enterobacterales

tailieu.vn

Genomic regions derived through recent HGT events are often typified by G + C contents that vary substantially from the rest of the genome [26]. 4.0 to + 5.0%) that of the remainder of the genome (Additional file 1: Table S2). This may be attributed in part to the distinct G + C content of the VR1 and VR2 regions. This is particularly evi- dent in the Enterobacteriaceae, where the flag-2 loci have an average G + C content 2.1% (range − 3.1 to + 5.8%) above that of the rest of the genome.