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Chủ đề : BMC Genomics


Có 20+ tài liệu thuộc chủ đề "BMC Genomics"

Characterization of nucleic acids from extracellular vesicle-enriched human sweat

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Amidase ami Propionibacterium phage PAS10 287. Capsid and scaffold protein Propionibacterium phage PA1 – 14 186. Collagen-like protein PHL308M00_19 Propionibacterium phage PHL308M00 268. Collagen-like protein PHL150M00_19 Propionibacterium phage PHL150M00 268. DNA helicase SEA_MEAK_33 Propionibacterium phage MEAK 317. DNA primase 31 P141_31 Propionibacterium phage P14 133. Exonuclease WIZZO_26 Propionibacterium phage Wizzo 348. Exonuclease MRAK_36 Propionibacterium phage MrAK 313. Gp14 PaP-PAS50_gp14 Propionibacterium...

Transcriptional profiling reveals potential involvement of microvillous TRPM5- expressing cells in viral infection of the olfactory epithelium

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We find that, as found for solitary chemosensory cells (SCCs) and brush cells in the airway epithelium, and for tuft cells in the intestine, the transcriptome of TRPM5-expressing microvillous cells indicates that they are likely involved in the inflammatory response elicited by viral infection of the olfactory epithelium.. We crossed a mouse expressing mCherry in the nuclei of OSNs under...

Unravelling population structure heterogeneity within the genome of the malaria vector Anopheles gambiae

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heterogeneity within the genome of the malaria vector Anopheles gambiae. A recently separated species of the complex, An. Most notably, the frequencies of the largest and most geo- graphically distributed inversions in the second chromo- some of An. The goal of this dimen- sionality reduction is to preserve as much of the high dimensional population structure information in the low...

Chloroplast phylogenomics and divergence times of Lagerstroemia (Lythraceae)

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Chloroplast phylogenomics and divergence times of Lagerstroemia (Lythraceae). Our dating analysis suggested that Lagerstroemia originated in the late Paleocene. 60 Ma) and started to diversify in the middle Miocene. Four variable loci, trnD- trnY-trnE, rrn16-trnI, ndhF-rpl32-trnL and ycf1, were discovered in the Lagerstroemia chloroplast genomes.. utilization of Lagerstroemia.. There are at least 500 named crape myrtle cultivars avail- able in...

Re-examination of two diatom reference genomes using long-read sequencing

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Results: We have used Oxford Nanopore Technologies long-read sequencing to update and validate the quality and contiguity of the T. Full list of author information is available at the end of the article. The first diatom nuclear genomes to be sequenced were those of the radial centric diatom Thalassiosira pseudo- nana (CCMP1335) [3] and the pennate diatom Phaeodac- tylum tricornutum...

Cruxome: A powerful tool for annotating, interpreting and reporting genetic variants

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The integrated architecture of Cruxome offers key advantages such as an interactive and user-friendly interface and the assimilation of electronic health records of the patient. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the...

Multi-ethnic genome-wide association analyses of white blood cell and platelet traits in the Population Architecture using Genomics and Epidemiology (PAGE) study

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Multi-ethnic genome-wide association analyses of white blood cell and platelet traits in the Population Architecture using Genomics and Epidemiology (PAGE) study. We confirmed multiple previously reported genome- wide significant variants in the single variant association analysis and multiple genes using PrediXcan. The images or other third party material in this article are included in the article's Creative Commons licence, unless...

Genomic insights into body size evolution in Carnivora support Peto’s paradox

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Genomic insights into body size evolution in Carnivora support Peto ’ s paradox. Background: The range of body sizes in Carnivora is unparalleled in any other mammalian order — the heaviest species is 130,000 times heavier than the lightest and the longest species is 50 times longer than the shortest.. However, the molecular mechanisms underlying these huge differences in body...

The myxozoan minicollagen gene repertoire was not simplified by the parasitic lifestyle: Computational identification of a novel myxozoan minicollagen gene

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Background: Lineage-specific gene expansions represent one of the driving forces in the evolutionary dynamics of unique phylum traits. Phylogenetic analyses support a close relationship between myxozoan Ncol- 1 – 3 with minicollagens of Polypodium hydriforme, but suggest independent evolution in the case of the myxozoan minicollagens Ncol-4 and Ncol-5. 1 Institute of Parasitology, Biology Centre, Academy of Sciences of the...

Genome-wide characterization of microsatellite DNA in fishes: Survey and analysis of their abundance and frequency in genome-specific regions

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To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.. ensembl.org/index.html). Table 1 Data source and genome sizes of the 14 fish species studied in the present study. Distribution patterns of microsatellite repeats in...

Comparative genomics reveals broad genetic diversity, extensive recombination and nascent ecological adaptation in Micrococcus luteus

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Micrococcus luteus. With one of the smallest genomes of free-living actinobacteria, it is found in a wide range of environments, but intraspecies genetic diversity and adaptation strategies to various environments remain unclear. Here, comparative genomics, phylogenomics, and genome-wide association studies were used to investigate the genomic diversity, evolutionary history, and the potential ecological differentiation of the species.. Reconstruction of gene...

Transcriptome of different fruiting stages in the cultivated mushroom Cyclocybe aegerita suggests a complex regulation of fruiting and reveals enzymes putatively involved in fungal oxylipin biosynthesis

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Transcriptome of different fruiting stages in the cultivated mushroom Cyclocybe. To elucidate the so far barely understood biosynthesis of fungal volatiles, alterations in the transcriptome during different developmental stages of C. aegerita were analyzed and combined with changes in the volatile profile during its different fruiting stages.. Combining transcriptome and volatilome data, enzymes putatively involved in the biosynthesis of C8...

Global investigation of estrogen-responsive genes regulating lipid metabolism in the liver of laying hens

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Global investigation of estrogen-responsive genes regulating lipid metabolism in the liver of laying hens. In chickens, estrogen is critical for lipid metabolism in the liver. Integrated analysis of the data of RNA-Seq and ChIP-Seq, identified 191 genes directly targeted by estrogen, including 185 protein-coding genes, 4 miRNAs, and 2 lncRNAs. Conclusions: These results increase our understanding of the functional network...

Long non-coding RNA exploration for mesenchymal stem cell characterisation

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These lncRNAs were assigned, depending on their position relative to annotated genes, to “MSC- related long intergenic non-coding RNAs” named “Mlinc”, and to “MSC-related long overlapping antisense RNAs”. Of these, 34712 were found to be intergenic and were thus referred to as “Mlinc” RNAs, and 38751 were found to overlap with coding regions but in anti-sense orientation and thus referred...

Correction for both common and rare cell types in blood is important to identify genes that correlate with age

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Whole blood gene expression signatures have been associated with aging and have been used to gain information on its biological mechanisms, which are still not fully understood. As a result, previously observed associations between gene expression levels and aging might be driven by cell type composition rather than intracellular aging mechanisms. Both models were applied to whole blood gene expression...

MONTAGE: A new tool for high-throughput detection of mosaic copy number variation

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MONTAGE: a new tool for high-throughput detection of mosaic copy number variation. Mosaicism is a prevalent and impactful class of non-integer state copy number variation (CNV). Mosaicism implies that certain cell types or subset of cells contain a CNV in a segment of the genome while other cells in the same individual do not. Results: We developed a tool called...

Genome-wide association studies detects candidate genes for wool traits by resequencing in Chinese fine-wool sheep

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Genome-wide association studies detects candidate genes for wool traits by re-. Background: The quality and yield of wool determine the economic value of the fine-wool sheep. Therefore, discovering markers or genes relevant to wool traits is the cornerstone for the breeding of fine-wool sheep. A genome-wide association study (GWAS) was performed to detect the candidate genes for the eight wool...

Genome-wide identification and geneediting of pigment transporter genes in the swallowtail butterfly Papilio xuthus

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editing of pigment transporter genes in the swallowtail butterfly Papilio xuthus. However, little is known about the copy numbers of pigment transporter genes in the butterfly genomes and about the roles of pigment transporters in the development of swallowtail butterflies.. Results: Here, we have identified 56 ABC transporters and 58 Rab members in the genome of swallowtail butterfly Papilio xuthus....

Transcriptome sequencing and metabolome analysis of food habits domestication from live prey fish to artificial diets in mandarin fish (Siniperca chuatsi)

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metabolome analysis of food habits domestication from live prey fish to artificial diets in mandarin fish. Mandarin fish (Siniperca chuatsi) only feed on live prey fish and refuse artificial diets. In the present study, we domesticated mandarin fish to feed on artificial diets. The two groups were obtained, the fish did not eat artificial diets or ate artificial diets during...

Adaptation of codon and amino acid use for translational functions in highly expressed cricket genes

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Adaptation of codon and amino acid use for translational functions in highly. Moreover, specific codons and amino acids may have translational functions in highly transcribed genes, that largely depend on their relationships to tRNA gene copies in the genome. Results: Here, we studied codon and amino acid use in highly expressed genes from reproductive and nervous system tissues (male and...