Research Article

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11/07/2013
Diabetic wounds; Module analysis; Phylogenetic analysis

This study aimed to identify marker genes in diabetic wounds using a dataset based on a DNA microarray of dermal lymphatic endothelial cells, and our results provide a basic understanding of diabetic wounds through further study of these differentially expressed genes (DEGs). From the Gene Expression Omnibus database, we downloaded a gene expression microarray (GSE38396) that includes 8 ... more

T. Ni; N. Wang; Z.G. Mao; M. Yao
10/10/2013
Curetis bulis; Lepidoptera; Lycaena phlaeas; Lycaenidae; Mitochondrial genome; Phylogenetic analysis

In this study, the complete mitochondrial genomes of Curetis bulis and Lycaena phlaeas were determined and analyzed. The circular genomes are 15,162 bp long for C. bulis and 15,280 bp long for L. phlaeas, with a total A+T content of 82.6 and 83.1%, respectively. Both mitogenomes contain 37 genes, and their gene orders are similar to those of other ... more

L.L. Zhang; J.S. Hao; D.Y. Huang; X.Y. Sun; J.J. Hao; C.M. Peng; Q. Yang
04/02/2013
Auxin response factors; Cucumis sativus L.; Genome sequence; Phylogenetic analysis; Transcription factor

Auxin response factors (ARFs) participate in the transcriptional regulation of a series of biological processes related to growth and development. The ARF genes comprise a large multigene family in plants. Recently, a draft of the full cucumber (Cucumis sativus) genome assembly has been released; however, none of the ARF genes have been characterized. We made a ... more

S.Q. Liu; L.F. Hu
05/14/2013
Capripoxvirus; ORF 095 gene; ORF 103 gene; P32 gene; Phylogenetic analysis; Small-tailed Han sheep

An outbreak of sheep pox was investigated in the Ningxia Hui Autonomous Region in China. Through immunofluorescence testing, isolated viruses, polymerase chain reaction identification, and electron microscopic examination, the isolated strain was identified as a sheep pox virus. The virus was identified through sequence and phylogenetic analysis of the P32 gene, open reading frame (ORF) ... more

X.L. Zhu; F. Yang; H.X. Li; Y.X. Dou; X.L. Meng; H. Li; X.N. Luo; X.P. Cai
04/02/2013
8S-ITS2; Brazil; DNA barcoding; Endophytic fungi; Family plants; ITS1-5; Phylogenetic analysis

Brazil has a great diversity of plants, and considering that all plant species studied to date have endophytic microorganisms (bacteria or fungi), the country is a resource in the search for bioactive compounds. Endophytes live within plants without causing damage and may be in dynamic equilibrium with the health of the plant. Endophytic fungi can be identified by sequencing the region ... more

S.A. Rhoden; A. Garcia; J.L. Azevedo; J.A. Pamphile
03/13/2013
Dasypyrum; Phylogenetic analysis; γ-gliadin genes

As the most ancient member of the wheat gluten family, the γ-gliadin genes are suitable for phylogenetic analysis among wheat and related species. Species in the grass genus Dasypyrum have been widely used for wheat cross breeding. However, the genomic relationships among Dasypyrum species have been little studied. We isolated 22 novel γ-gliadin gene sequences, among ... more

G.R. Li; C. Liu; E.N. Yang; Z.J. Yang
02/08/2013
Bovine papillomavirus; Entropy; L1 gene; Phylogenetic analysis

Bovine papillomaviruses (BPVs) cause many benign and malignant lesions in cattle and other animals. Twelve BPV types have been identified so far, and several putative novel BPV types have been detected based on the analysis of L1 gene fragments, generated by FAP59/64 and MY11/09 primers. Phylogenetic trees are important in studies that describe novel BPV types. However, topological ... more

M.V.A. Batista; A.C. Freitas; V.Q. Balbino
01/22/2013
AP2/ERF superfamily; Gene characteristics; Peach; Phylogenetic analysis

We identified 131 AP2/ERF (APETALA2/ethylene-responsive factor) genes in material from peach using the gene sequences of AP2/ERF amino acids of Arabidopsis thaliana (Brassicaceae) as probes. Based on the number of AP2/ERF domains and individual gene characteristics, the AP2/ERF superfamily gene in peach can be classified broadly into ... more

C.H. Zhang; L.F. Shangguan; R.J. Ma; X. Sun; R. Tao; L. Guo; N.K. Korir; M.L. Yu
07/19/2012
FastJoin; Neighbor-joining algorithm; Phylogenetic analysis; Phylogenetic tree

Reconstructing the evolutionary history of a set of species is an elementary problem in biology, and methods for solving this problem are evaluated based on two characteristics: accuracy and efficiency. Neighbor-joining reconstructs phylogenetic trees by iteratively picking a pair of nodes to merge as a new node until only one node remains; due to its good accuracy and speed, it has been ... more

J. Wang; M.Z. Guo; L.L. Xing
11/27/2014
Blumea balsamifera DC; Farnesyl diphosphate synthase; Phylogenetic analysis; Secondary structure; Subcellular localization

Blumea balsamifera DC is a member of the Compositae family and is frequently used as traditional Chinese medicine. Blumea balsamifera is rich in monoterpenes, which possess a variety of pharmacological activities, such as antioxidant, anti-bacteria, and anti-viral activities. Farnesyl diphosphate synthase (FPS) is a key enzyme in the biosynthetic pathway of terpenes, ... more

Y.X. Pang; L.L. Guan; L.F. Wu; Z.X. Chen; K. Wang; X.L. Xie; F.L. Yu; X.L. Chen; Y.B. Zhang; Q. Jiang

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