Roseomonas alkaliterrae sp. nov., isolated from an alkali geothermal soil sample in Tengchong,Yunnan, south-west China

An alkalitolerant, thermotolerant and Gram-stain negative bacterium, designated strain YIM 78007^T, was isolated from an alkaline geothermal soil sample from Hehua hot spring, Tengchong, Yunnan province, south-west China. Cells of strain YIM 78007^T were observed to be aerobic and short rod-shaped. The colonies were observed to be orange-red, convex and circular. 16S rRNA gene sequence-based phylogenetic analysis showed that strain YIM 78007^T clustered with members of the genus Roseomonas (with similarities from 97.2 to 92.2 %). Optimal growth of strain YIM 78007 occurs at 40–50 °C and pH 8.0–10.0. The predominant ubiquinone was identified as Q-10 and the major fatty acids were identified as C_18:1 ω7c and C_16:0. The polar lipids were identified as diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, two unidentified aminolipids and one unknown phospholipid. The G + C content of the genomic DNA was determined to be 63 mol %. The levels of DNA–DNA hybridization relatedness between strain YIM 78007^T and its closet neighbours (Roseomonas lacus JCM 13283^T and Roseomonas terrae JCM 14592^T) were well below the threshold required for the proposal of a novel species. The results of physiological and biochemical characteristics, the phylogenetic analysis, as well as low DNA–DNA hybridization values, allowed the phenotypic and genotypic differentiation of strain YIM 78007^T from its closest phylogenetic neighbours. Therefore, strain YIM 78007^T is considered to represent a novel species of the genus Roseomonas, for which the name Roseomonas alkaliterrae sp. nov. is proposed. The type strain is YIM 78007^T (=BCRC 80644^T = JCM 19656^T).     

河南省桐柏县两产地日本三角涡虫核型分析

利用空气干燥法对采自河南省桐柏县下虎山和盘古溪两产地日本三角涡虫(Dugesia japonica)的染色体及核型进行了研究。结果表明,日本三角涡虫下虎山种群体细胞中染色体数目以16条为主,染色体基数x=8,为2倍体,核型公式为2n=2x=16=16m;日本三角涡虫盘古溪种群体细胞中染色体数目以24条为主,染色体基数x=8,为3倍体,核型公式为2n=3x=24=24m。     

Molecular phylogeography and population structure of a mid-elevation montane frog Leptobrachium ailaonicum in a fragmented habitat of southwest China

Leptobrachium ailaonicum is a vulnerable anuran restricted to a patchy distribution associated with small mountain streams surrounded by forested slopes at mid-elevations (approximately 2000–2600 m) in the subtropical Mount Wuliang and Mount Ailao ranges in southwest China (Yunnan Province) and northern Vietnam. Given high habitat specificity and lack of suitable habitat in lower elevations between these ranges, we hypothesized limited gene flow between populations throughout its range. We used two mitochondrial genes to construct a phylogeographic pattern within this species in order to test our hypothesis. We also examined whether this phylogeographic pattern is a response to past geological events and/or climatic oscillations. A total of 1989 base pairs were obtained from 81 individuals of nine populations yielding 51 unique haplotypes. Both Bayesian and maximum parsimony phylogenetic analyses revealed four deeply divergent and reciprocally monophyletic mtDNA lineages that approximately correspond to four geographical regions separated by deep river valleys. These results suggest a long history of allopatric separation by vicariance. The distinct geographic distributions of four major clades and the estimated divergence time suggest spatial and temporal separations that coincide with climatic and paleogeographic changes following the orogeny and uplift of Mount Ailao during the late Miocene to mid Pliocene in southwest China. At the southern distribution, the presence of two sympatric yet differentiated clades in two areas are interpreted as a result of secondary contact between previously allopatric populations during cooler Pleistocene glacial cycles. Analysis of molecular variance indicates that most of the observed genetic variation occurs among the four regions implying long-term interruption of maternal gene flow, suggesting that L. ailaonicum may represent more than one distinct species and should at least be separated into four management units corresponding to these four geographic lineages for conservation.     

A study on the interaction between 5-Methyluridine and human serum albumin using fluorescence quenching method and molecular modeling

This work was designed to study the interaction between 5-Methyluridine and human serum albumin (HSA) under simulative physiological conditions using fluorescence spectroscopy in combination with molecular modeling technique for the first time. Static quenching was suggested by the fluorescence measurement. The binding constants (K) were calculated according to the relevant fluorescence data at different conditions including temperature. Thermodynamic parameter, different conditions including temperature to determine enthalpy change and entropy change, indicating the hydrophobic force played a major role in the binding interaction between 5-Methyluridine and HSA. The experimental result was in correspondence with molecular modeling theory.     

Characteristics of cadmium accumulation and tolerance in <Emphasis Type="Italic">Rorippa globosa</Emphasis> (Turcz.) Thell., a species with some characteristics of cadmium hyperaccumulation

Characteristics of cadmium (Cd) accumulation and tolerance in Rorippa globosa (Turcz.) Thell., a species with some characteristics of cadmium hyperaccumulation were further investigated and compared with a closely related species, Rorippa islandica. The results showed that there was no phytotoxicity for R. globosa leaves or reduction in biomass when treated with 25 μg Cd g⁻¹, although the concentration of Cd accumulated in the leaves was up to 218.9 μg Cd g⁻¹ dry weight (DW). On the contrary, Cd toxicity was observed in R. islandica leaves by way of determining changes in fresh weight (FW), malondialdehyde (MDA) level and chlorophyll content while treated with 25 μg Cd g⁻¹ DW. R. globosa had stronger self-protection ability than R. islandica to adapt to oxidative stress caused by Cd. Application of Cd significantly increased the activity of superoxide dismutase (SOD) in leaves, the activity of peroxidase (POD) in roots, and the activity of catalase (CAT) in leaves and roots of R. globosa. By contrast, in R. islandica, the activity of antioxidant enzymes was inhibited or unchanged by various Cd treatments. However, R. globosa leaves had higher activity of antioxidant enzymes such as SOD and POD than that of R. islandica. The antioxidative defense systems in R. globosa might play an important role in Cd tolerance. The Cd treatments significantly induced the synthesis of phytochelatins (PCs) in the two species. Leaf PCs and Cd accumulation by R. globosa were much greater than those by R. islandica, but root PCs and Cd accumulation by R. islandica were much greater than those by R. globosa, suggesting that PCs in leaves may be a biomarker of Cd hyperaccumulation, and the synthesis of PCs may be related to an increase in the uptake of Cd ions into the cytoplasm, not the primary mechanism for Cd tolerance.     

生防菌株1404的鉴定及其对采后柑橘炭疽病的防治效果

【目的】柑橘是世界上重要的果树。由胶孢炭疽菌[Colletotrichum gloeosporioides(Penz.)Sacc.]引起的柑橘炭疽病是柑橘生产的主要病害。为开发对采后柑橘炭疽病有效的生防措施,对从辣椒根际土壤中分离的一株生防细菌1404进行了鉴定,并对其特性及生防效果进行了研究。【方法】根据菌株1404的形态特征、生理生化特性以及16SrDNA序列对其进行鉴定;通过连续在人工培养基上转代培养,测定该菌株拮抗活性的稳定性;用果实刺伤接种法对采后柑橘炭疽病的防效进行测定。【结果】菌株1404与来自GenBank的短短芽孢杆菌[Brevibacillus brevis(Migula)Shidaetal.]以100%bootstrap水平类聚一群。该菌株的形态特征及生理生化特性与Brevibacillus brevis相符。连续4次在人工培养基上转代培养,菌株1404对柑橘炭疽病菌生长的抑制力没有发生明显改变。该生防菌对柑橘炭疽病的防治效果明显,处理后第20天防效达到64.9%。【结论】根据16SrDNA序列、形态特征、生理生化特性,将菌株1404鉴定为短短芽孢杆菌。本文首次报道对柑橘采后炭疽病具有较好防效的生防菌Brevibacillus brevis。     

Activation of gibberellin 2-oxidase 6 decreases active gibberellin levels and creates a dominant semi-dwarf phenotype in rice （Oryza sativa L.）

Gibberellin (GA) 2-oxidase plays a key role in the GA catabolic pathway through 2β-hydroxylation.In the present study,we isolated a CaMV 35S-enhancer activation tagged mutant,H032.This mutant exhibited a dominant dwarf and GA-deficient phenotype,with a final stature that was less than half of its wild-type counterpart.The endogenous bioactive GAs are markedly decreased in the H032 mutant,and application of bioactive GAs (GA3 or GA4) can reverse the dwarf phenotype.The integrated T-DNA was detected 12.8 kb upstream of the OsGA2ox6 in the H032 genome by TAIL-PCR.An increased level of OsGA2ox6 mRNA was detected at a high level in the H032 mutant,which might be due to the enhancer role of the CaMV 35S promoter.RNAi and ectopic expression analysis of OsGA2ox6 indicated that the dwarf trait and the decreased levels of bioactive GAs in the H032 mutant were a result of the up-regulation of the OsGA2ox6 gene.BLASTP analysis revealed that OsGA2ox6 belongs to the class III of GA 2-oxidases,which is a novel type of GA2ox that uses C20-GAs (GA12 and/or GA53) as the substrates.Interestingly,we found that a GA biosynthesis inhibitor,paclobutrazol,positively regulated the OsGA2ox6 gene.Unlike the over-expression of OsGA2ox1,which led to a high rate of seed abortion,the H032 mutant retained normal flowering and seed production.These results indicate that OsGA2ox6 mainly affects plant stature,and the dominant dwarf trait of the H032 mutant can be used as an efficient dwarf resource in rice breeding.     

The calculation of information and organismal complexity

Background  

It is difficult to measure precisely the phenotypic complexity of living organisms. Here we propose a method to calculate the minimal amount of genomic information needed to construct organism (effective information) as a measure of organismal complexity, by using permutation and combination formulas and Shannon's information concept.     

三个小麦春化基因的时空表达特性分析(英文)

为明确小麦春化基因的时空表达特性,以中国春和洛旱2号小麦品种为试验材料,利用半定量RT-PCR技术,分析了3个春化基因VERNALIZATION1(VRN1)、VRN2和VRN3的时空表达特性。结果表明,VRN1在中国春的三叶期叶片和根、灌浆期的茎秆和旗叶、花药、胚珠和发育的种子中均有不同程度的表达。在开花前,表达水平呈上升趋势,而花后呈降低的趋势,在干种子和萌发种子的胚芽中没有检测到表达;在洛旱2号中,除了在三叶期的叶片和根中没有检测到表达外,VRN1的表达特性与中国春有相同的趋势。VRN2只在三叶期的叶片和萌发种子的胚芽中表达,在其他检测的组织中没有表达;VRN3的表达与VRN1的时空表达特性相似,但在根中未检测到表达。这一结果为进一步分析普通小麦品种春化发育的分子调控机理提供了重要信息。