Gene family contraction and expansion

Author: cmhs

August undefined, 2024

WebEstimation of gene family expansion and contraction using CAFE. (a) Clock calibrated phylogenetic tree showing the number of gene families significantly (P-value ≤ 0.01) expanded (red),... WebOct 30, 2024 · The following genes were used in the figure: wtpABC, Wtp transport system subunits A, B and C; MOSC, molybdenum cofactor sulfurase; MoOR, Molybdopterin oxidoreductase; wrbA, NAD (P)H quinone...

The genome of Nautilus pompilius illuminates eye evolution and ... - Nature

WebOct 20, 2024 · Interestingly, the CYP725A gene families, encoding hydroxylase involved in Taxol synthesis, exhibited significant expansion, and most of them clustered on chromosome 12 and exhibited... WebWe observed different gene family expansion/contraction histories for plant cell wall degrading enzymes in core polyporoids and phlebioids and captured expansions for genes involved in signalling and regulation in the lineages of white rotters. sprain on outside of foot

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WebPhylogenetic tree, gene family contraction and expansion and time line divergence of pineapple among the subclass Commelinidae. The phylogenetic tree was constructed using 409 single-copy-genes... WebFeb 12, 2024 · Rosa chinensis var. spontanea, an endemic and endangered plant of China, is one of the key ancestors of modern roses and a source for famous traditional Chinese medicines against female diseases, such as irregular menses and dysmenorrhea. In this study, the complete chloroplast (cp) genome of R. chinensis var. spontanea was … WebAdaptation by Gene Family Expansion or Contraction? Phylogenomics. The wealth of sequenced fungal genomes has enabled comparative phylogenomics and these comparisons have found that fungi can adapt … shenzhen cudy technology co. ltd

Large gene family expansions and adaptive evolution for odorant …

Expanding the Menu: Are Polyphagy and Gene Family Expansions …

WebAug 26, 2024 · Gene family expansion and contraction are generally considered important evolutionary mechanisms that contribute to evolutionary adaption to the environment [45,46]. To reveal gene family expansion and contraction related to environmental stress in ‘Changxianggeng 1813’, we undertook a computational analysis … WebApr 11, 2024 · The expansion of the MADS-box gene family and CYC2 genes because of the recent WGT-2 and triploidization events might be responsible for the ... sample number of 100,000, and sampling frequency of 2. In addition, the analysis of gene family expansion and contraction was performed by the CAFÉ program 105. Synonymous substitutions … shenzhen cultraview digital technologyWebMar 14, 2008 · A gene family is a set of genes derived by duplication of an ancestral gene. Various gene families, from small to large and from uniform to diverse, reflect effects of natural selection,... sprain patellofemoral ligament icd 10

"WebThe expansion or contraction of gene families is an important factor in species differentiation, phenotypic diversification, and adaptation to natural changes [127, 128]. Similarly,... " - Gene family contraction and expansion

Gene family contraction and expansion

Genome expansion and lineage-specific genetic …

WebContraction deletes divergent gene copies and keeps gene families from becoming too large. Expansion replaces lost gene copies and prevents gene families from becoming … WebJun 25, 2024 · Comparative genomic analyses were conducted to investigate WGDs and gene family expansions and contractions, with an emphasis on the NBS-LRR gene family. In addition, we explored the effect of TEs on the rapid invasion of N. indica. The results provide vital insights into the quick dispersal of aquatic plants to diverse aquatic …

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WebFeb 17, 2024 · Genome-wide analyses included gene family expansion/contraction, positive selection, and diverged sequence (acceleration) compared to other placental mammals, identifying selection in... WebNov 1, 2024 · Significant gene family contraction and expansion in each of the six genomes were determined using CAFE (v5; De Bie et al., 2006) with a p-value<0.01. The significantly expanded gene families were used …

WebApr 24, 2024 · The Colletotrichum crown, Sordariomycetes crown, and Sordariomycetes-Leotiomycetes crown were chosen as calibration points [17, 38], predictions from a combination of four calibration schemes and three smoothing factors were compared to estimate divergence ranges. CAFE program version 3.1 was used for gene family … WebGenome annotation and gene family expansion analysis By implementing de novo repeat prediction tools at Repbase, we found that 92.91% of the estimated celery genome was composed of repetitive sequences, more than twice that in carrot (46%) and consistent with the larger celery genome size (Figure 1b; Table S14 ).

WebJul 17, 2024 · Expansions and contractions in gene families of independently-evolved blood-feeding insects. Our results reveal a new set of candidate genes to be explored in … WebApr 1, 2024 · Further analysis of gene family expansion and contraction revealed that 252 gene families expanded and 52 gene families contracted in the olive genome (Fig. 4c ). These 252 expanded...

WebDec 24, 2024 · The analyses of gene family expansions and contractions using CAFE and inclusion of all gene families, using the “all gene families data set,” resulted in an overall …

WebThe expansion or contraction of gene families is an important factor in species differentiation, phenotypic diversification, and adaptation to natural changes [127, 128]. Similarly, whole-genome ... sprain or broken wristWebConsistently, Computational Analysis of (gene) Family Evolution (CAFE) analysis reveals a huge contraction of orthologous gene families in the N. pompilius genome by the observation of 204... shenzhen cultraviewWebApr 13, 2024 · For each gene, we obtained the rate of its gene family expansion and contraction, as computed using the CAFE algorithm , from ENSEMBL Compara . To test our analysis with a non-redundant set of paralog pairs, we subset each gene family to N-1 paralog pairs (each gene family of N paralogs is a result of at least N-1 duplication events). sprain palm of handWebJul 9, 2024 · The subfamily Pothoideae belongs to the ecologically important plant family Araceae. Here, we report the chloroplast genomes of two species of the subfamily Pothoideae: Anthurium huixtlense (size: 163,116 bp) and Pothos scandens (size: 164,719 bp). The chloroplast genome of P. scandens showed unique contraction and … shenzhen customs affair office 5WebAug 21, 2014 · Genome dynamics in prokaryotes: extensive gene family loss and gain dominate over family expansion and reduction. We employed an updated version of the ATGCs [] to reconstruct the genome evolution for 34 groups of bacteria and one group of archaea (Additional file 1: Table S1 and Additional file 2: Figure S1).From the clusters of … sprain or broken footWebAug 30, 2024 · Rosa lucieae is one of the famous wild ancestors of cultivated roses and plays a very important role in horticultural research, but there is still a lack of research on the R. lucieae chloroplast genome. In this study, we used the Illumina MiSeq platform for sequencing, assembly, and annotation to obtain the R. lucieae chloroplast genome … sprain or strain worseWebApr 13, 2024 · Head and neck squamous cell carcinoma (HNSCC) is among the most severe and complex malignant diseases with a high level of heterogeneity and, as a result, a wide range of therapeutic responses ... sprain pathophysiology