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Zhang L.,Sichuan Agricultural University | Zhang P.,Sichuan Agricultural University | Li Q.,Southwest forestry University | Li Q.,Kunming Xianghao Technology Co. | And 9 more authors.
PLoS ONE | Year: 2017

Chicken is the most common poultry species and is important to human societies. Tibetan chicken (Gallus gallus domesticus) is a breed endemic to China that is distributed mainly on the Qinghai-Tibet Plateau. However, its origin has not been well characterized. In the present study, we sequenced partial mitochondrial DNA (mtDNA) control region of 239 and 283 samples from Tibetan and Sichuan indigenous chickens, respectively. Incorporating 1091 published sequences, we constructed the matrilineal genealogy of Tibetan chickens to further document their domestication history. We found that the genetic structure of the mtDNA haplotypes of Tibetan chickens are dominated by seven major haplogroups (A-G). In addition, phylogenetic and network analyses showed that Tibetan chickens are not distinguishable from the indigenous chickens in surrounding areas. Furthermore, some clades of Tibetan chickens may have originated from game fowls. In summary, our results collectively indicated that Tibetan chickens may have diverged from indigenous chickens in the adjacent regions and hybridized with various chickens. © 2017 Zhang et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.


Tu J.,Sichuan Agricultural University | Li D.,Sichuan Agricultural University | Li Q.,Yunnan Normal University | Li Q.,Kunming Xianghao Technology Co | And 8 more authors.
Evolutionary Bioinformatics | Year: 2015

Vertebrate b-defensins comprise an important family of antimicrobial peptides that protect organisms from a diverse spectrum of bacteria, viruses, fungi, and protozoan parasites. Previous studies have shown a marked variation in the number of b-defensins among species, but the underlying reason is unclear. To address this question, we performed comprehensive computational searches to study the intact b-defensin genes from 29 vertebrates. Phylogenetic analysis of the b-defensin genes in vertebrates identified frequent changes in the number of b-defensin genes and multiple species-specific gene gains and losses that have been occurring throughout the evolution of vertebrates. The number of intact b-defensin genes varied from 1 in the western clawed frog to 20 in cattle, with numerous expansions and contractions of the gene family throughout vertebrates, especially among tetrapods. The b-defensin gene number in a species is relevant to the ever-changing microbial challenges from the environment that they inhabit. Selection pressure analysis shows there exist three amino acid sites under significant positive selection. Protein structural characteristics analysis suggests that structural diversity determines the diverse functions of b-defensins. Our study provides a new perspective on the relationships among vertebrate b-defensin gene repertoires and different survival circumstances, which helps explain how b-defensins have evolved © the authors, publisher and licensee Llibertas Aacademica Llimited.


Duan Y.-Q.,China Tobacco Yunnan Industrial Co. | Zhou X.-K.,China Tobacco Yunnan Industrial Co. | Zhou X.-K.,Southwest forestry University | Di-Yan L.,Sun Yat Sen University | And 9 more authors.
Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology | Year: 2015

A Gram-stain negative, motile, rod-shaped bacterium, designated strain YIM Hb-3T, was isolated from the stem of a tobacco plant. The strain was observed to form convex, circular and yellow-colored colonies. The predominant respiratory quinone was identified as Q-8. The major fatty acids (>5 %) detected were C16:1ω7c and/or C16:1ω6c (summed feature 3), C16:0, C17:0cyclo, C18:1ω7c and/or C18:1ω6c (summed feature 8), C14:03-OH and/or iso-C16:1I (summed feature 2), C14:0 and C12:0. The genomic DNA G+C content was determined to be 54.8 mol%. Phylogenetic trees based on 16S rRNA gene sequences and multilocus sequence analysis showed that strain YIM Hb-3T had the closest phylogenetic relationship with Enterobacter mori LMG 25706T. DNA–DNA relatedness value between strain YIM Hb-3T and E. mori LMG 25706T was 46.9 ± 3.8 %. On the basis of phenotypic and chemotaxonomic data, phylogenetic analysis, and DNA–DNA relatedness value, strain YIM Hb-3T is considered to represent a novel species of the genus Enterobacter, for which the name Enterobacter tabaci sp. nov. is proposed. The type strain is YIM Hb-3T (=KACC 17832T =KCTC 42694T). © 2015, Springer International Publishing Switzerland.


Gao R.,China Tobacco Yunnan Industrial Co. | Liu B.-B.,Sun Yat Sen University | Liu B.-B.,Yunnan University | Yang W.,China Tobacco Yunnan Industrial Co. | And 8 more authors.
International Journal of Systematic and Evolutionary Microbiology | Year: 2016

A Gram-reaction-positive, aerobic, non-motile, irregular coccoid strain, designated YIM 7505T, was isolated from a leaf of Sweet Basil. Phylogenetic analysis on the basis of 16S rRNA gene sequence comparisons revealed that strain YIM 7505T was closely related to Flexivirga alba NBRC 107580T(98.9% 16S rRNA gene sequence similarity) and formed a robust clade with F. alba NBRC 107580T in the neighbour-joining tree. Optimum growth of strain YIM 7505T was observed at 28–35 °C, pH 7.0 and in the presence of 0–3.0% NaCl (w/v). The chemotaxonomic profiles of the strain comprised of anteiso-C16:0 as the major cellular fatty acid and MK-8(H4) as the respiratory menaquinone. The peptidoglycan of strain YIM 7505T contained serine, alanine, glycine, glutamic acid and lysine. The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, six unidentified phospholipids, four unidentified glycolipids, an unidentified aminolipid and an unidentified aminophospholipid. The G+C contents of the genomic DNA of strain YIM 7505T was 66.7 mol%. DNA–DNA hybridizations of strain YIM 7505T with F. alba NBRC 107580T gave relatedness values of 50.6±2.2 %. On the basis of the data recorded from the present study, strain YIM 7505T is considered to represent a novel species of the genus Flexivirga, for which the name Flexivirga endophytica sp. nov. is proposed. The type strain is YIM 7505T(=KCTC 39536T=CGMCC 1.15085T). © 2016 IUMS.


PubMed | Kunming Xianghao Technology Co., Sun Yat Sen University and China Tobacco Yunnan Industrial Co.
Type: Journal Article | Journal: Antonie van Leeuwenhoek | Year: 2015

A Gram-stain negative, motile, rod-shaped bacterium, designated strain YIM Hb-3(T), was isolated from the stem of a tobacco plant. The strain was observed to form convex, circular and yellow-colored colonies. The predominant respiratory quinone was identified as Q-8. The major fatty acids (>5%) detected were C(16:1)7c and/or C(16:1)6c (summed feature 3), C(16:0), C(17:0)cyclo, C(18:1)7c and/or C(18:1)6c (summed feature 8), C(14:0)3-OH and/or iso-C(16:1)I (summed feature 2), C(14:0) and C(12:0). The genomic DNA G+C content was determined to be 54.8 mol%. Phylogenetic trees based on 16S rRNA gene sequences and multilocus sequence analysis showed that strain YIM Hb-3(T) had the closest phylogenetic relationship with Enterobacter mori LMG 25706(T). DNA-DNA relatedness value between strain YIM Hb-3(T) and E. mori LMG 25706(T) was 46.9 3.8%. On the basis of phenotypic and chemotaxonomic data, phylogenetic analysis, and DNA-DNA relatedness value, strain YIM Hb-3(T) is considered to represent a novel species of the genus Enterobacter, for which the name Enterobacter tabaci sp. nov. is proposed. The type strain is YIM Hb-3(T) (=KACC 17832(T) =KCTC 42694(T)).


Hu L.,Yunnan Nationalities University | Hu L.,Kunming Xianghao Technology Co. | Chen N.-N.,Yunnan Nationalities University | Feng L.,Southwest forestry University | And 4 more authors.
Biochemical Systematics and Ecology | Year: 2014

This paper reports the isolation and characterization of seven piceatannol derivatives (1 - 7), including two new compounds (4 and 6), along with resveratrol (8) and polydatin (9), from the underground parts of Rheum austral D. Don collected from Tibet. The structures of the isolates were identified based on analysis of their spectroscopic data and comparison with literature. Compounds 3-. 7, piceatannol-4'-O-glucopyranoside and its 6″-O-acylated derivatives reported in this study may be useful chemotaxonomic markers for R. austral collected from Tibet. © 2014 Elsevier Ltd.


Hu L.,Yunnan Nationalities University | Hu L.,Kunming Xianghao Technology Co. | Chen N.-N.,Yunnan Nationalities University | Hu Q.,Kunming Xianghao Technology Co. | And 3 more authors.
Molecules | Year: 2014

A novel dimer of piceatannol glycoside, named rheumaustralin (1) was isolated from the underground parts of the ethnomedicinal plant Rheum austral (Polygonaceae) collected from Tibet together with 17 known compounds, including rheumin (2), 2,5-dimethyl-7-hydroxychromone (3), 2,5-dimethylchromone-7-O- β-D-glucopyranoside (4), 7-hydroxy-2-(2′-hydroxypropyl)-5- methylchromone (5), torachrysone (6) torachrysone-8-O-β-D-glucopyranoside (7), 4-(4′-hydroxyphenyl)-2-butanone-4′-O-β-D-glucopyranoside (8), amabiloside (9), N-trans-feruloyl tyramine (10), chrysophanol (11), aloe-emodin (12), emodin (13), physcion (14), physcion-1-O-β-D- glucopyranoside (15), emodin-8-O-β-D-glucopyranoside (16), D-catechin (17) and gallic acid (18). Their structures were determined by combined spectroscopic methods and by comparison of their spectral data with those reported in literature. Compounds 1-10 were tested for their ability to scavenge 1, 1-diphenyl-2-picrylhydrazyl (DPPH) radical. © 2014 by the authors.


Liu W.-B.,Yunnan Nationalities University | Hu L.,Yunnan Nationalities University | Hu L.,Kunming Xianghao Technology Co. | Hu Q.,Kunming Xianghao Technology Co. | And 3 more authors.
Molecules | Year: 2013

Two new resveratrol trimer derivatives, named rheumlhasol A (1) and rheumlhasol B (2) were isolated from the methanolic extract of roots of Rheum lhasaense A. J. Li et P. K. Hsiao together with four known resveratrol dimer derivatives, including maximol A (3), gnetin C (4), ε-viniferin (5), and pallidol (6). The structures were determined by combined spectroscopic methods and by comparison of their spectral data with those reported in the literature. All the compounds isolated from R. lhasaense were tested for their ability to scavenge1,1-diphenyl-2-picrylhydrazyl (DPPH) radical. © 2013 by the authors.

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