浙江天童太白山不同群落植物构型比较

植物构型是植株构件在空间上的分配方式,反映了植物对环境的响应策略。通过对浙江天童太白山海拔差异很小的栲树(Castanopsis fargesii)、小叶青冈(Cyclobalanopsis gracilis)和云山青冈(Cyclobalanopsis sessilifolia)群落类型中所有植株的树高、树冠厚度、树冠面积、叶片聚集度、枝下高和距地45 cm基径等植物构型性状,以及树冠曝光指数、土壤含水率、空气温湿度、土壤p H值和风速6个环境因子的测定,分别分析乔灌木层植物构型性状及性状关系在3个群落间的变化规律。结果表明:(1)从栲树到小叶青冈至云山青冈群落,灌木层的树高、树冠厚度、枝下高和距地45 cm基径增加,叶片聚集度减小;乔木层的树高、树冠厚度、树冠面积、枝下高和距地45 cm基径均减小,叶片聚集度增大;(2)3个群落灌木层构型性状间显著相关(P0.001),而乔木层只在中低海拔群落存在相关性;(3)从栲树到小叶青冈至云山青冈群落,乔灌木层的冠层曝光指数显著增加(P0.05);(4)多元逐步回归表明,树冠曝光指数对灌木层构型性状变异的贡献最大,而风速、土壤含水率和p H值对乔木构型性状的变异起主导作用。综上得知,天童太白山乔灌木植物在不同群落间存在构型分异,植物对光资源的竞争是引起灌木构型在不同群落间变化的主要驱动因子,而对乔木植物,其构型变化更多受到风速和土壤含水量的影响。     

Detection of selection signatures in dairy and beef cattle using high-density genomic information

Background

Artificial selection for economically important traits in cattle is expected to have left distinctive selection signatures on the genome. Access to high-density genotypes facilitates the accurate identification of genomic regions that have undergone positive selection. These findings help to better elucidate the mechanisms of selection and to identify candidate genes of interest to breeding programs.

Results

Information on 705 243 autosomal single nucleotide polymorphisms (SNPs) in 3122 dairy and beef male animals from seven cattle breeds (Angus, Belgian Blue, Charolais, Hereford, Holstein-Friesian, Limousin and Simmental) were used to detect selection signatures by applying two complementary methods, integrated haplotype score (iHS) and global fixation index (F_ST). To control for false positive results, we used false discovery rate (FDR) adjustment to calculate adjusted iHS within each breed and the genome-wide significance level was about 0.003. Using the iHS method, 83, 92, 91, 101, 85, 101 and 86 significant genomic regions were detected for Angus, Belgian Blue, Charolais, Hereford, Holstein-Friesian, Limousin and Simmental cattle, respectively. None of these regions was common to all seven breeds. Using the F_ST approach, 704 individual SNPs were detected across breeds. Annotation of the regions of the genome that showed selection signatures revealed several interesting candidate genes i.e. DGAT1, ABCG2, MSTN, CAPN3, FABP3, CHCHD7, PLAG1, JAZF1, PRKG2, ACTC1, TBC1D1, GHR, BMP2, TSG1, LYN, KIT and MC1R that play a role in milk production, reproduction, body size, muscle formation or coat color. Fifty-seven common candidate genes were found by both the iHS and global F_ST methods across the seven breeds. Moreover, many novel genomic regions and genes were detected within the regions that showed selection signatures; for some candidate genes, signatures of positive selection exist in the human genome. Multilevel bioinformatic analyses of the detected candidate genes suggested that the PPAR pathway may have been subjected to positive selection.

Conclusions

This study provides a high-resolution bovine genomic map of positive selection signatures that are either specific to one breed or common to a subset of the seven breeds analyzed. Our results will contribute to the detection of functional candidate genes that have undergone positive selection in future studies.

Electronic supplementary material

The online version of this article (doi:10.1186/s12711-015-0127-3) contains supplementary material, which is available to authorized users.     

辽河流域大型底栖动物耐污值

大型底栖动物耐污值是构建河流生物评价指标的基础。受自然地理区域影响,同一分类单元的耐污值会出现地域上的差异,因此计算和修订适用于某一研究区域的耐污值是准确评价该区域河流健康状况的前提。目前尚未有针对我国北方河流大型底栖动物耐污值计算和修订的报道,基于2009年春季、秋季和2010年夏季在辽河流域308个样点的大型底栖动物数据,采用Simpson多样性指数的水质分级标准对所有样点的水质等级进行了划分,并利用累积分位数法计算获得了辽河流域大型底栖动物195个分类单元的耐污值;同时参考专家经验和相关文献核定了其余71个分类单元的耐污值。依据耐污值敏感特征划分标准,辽河流域大型底栖动物优势类群以敏感种和一般耐污种为主,两者几乎占到总分类单元数的84%,耐污类群种类较少,仅占16%。其中敏感类群有齿蛉科Corydalidae,襀科Perlidae,原石蛾科Rhyacophilidae,细裳蜉科Leptophlebiidae等;一般耐污类群有纹石蛾科Hydropsychidae,四节蜉科Baetidae,扁蜷螺科Planorbidae等;耐污类群有颤蚓科Tubificidae、石蛭科Erpobdellidae等。     

土地利用/覆盖变化对中国不同季节气温的影响

近几十年中国地区土地利用/覆盖变化(LUCC)较大,在区域气候模拟中尤其需要使用更加准确的土地利用/覆盖数据。基于模式原有的USGS和新开发的LUC90两种土地利用/覆盖资料,利用区域环境集成模拟系统(RIEMS2.0)分别进行连续10a模拟,分析LUCC对中国不同季节气温的影响。结果表明:1)采用LUC90资料后,中国及东北、华北、华南夏季平均气温增加,但只有东北模拟与观测值的偏差减小,且通过显著性检验(P0.01)。中国及东北、华南冬季平均气温增加,并且模拟与观测值的偏差减少。中国及华北和华南对冬季气温年际变率的模拟改善好于夏季。2)土地利用/覆盖变化通过影响潜热通量的变化和净吸收辐射通量的变化来影响不同季节气温的变化。冬季净辐射通量变化对气温变化的贡献较夏季大,而夏季潜热通量变化对气温变化的贡献较冬季大。雨养农田转变森林、草地、灌溉农田过程造成通量变化,其对气温变化的影响也存在不同分区季节的差异。     

A Cytosolic Thioredoxin Acts as a Molecular Chaperone for Peroxisome Matrix Proteins as Well as Antioxidant in Peroxisome

Thioredoxin (TRX) is a disulfide reductase present ubiquitously in all taxa and plays an important role as a regulator of cellular redox state. Recently, a redox-independent, chaperone function has also been reported for some thioredoxins. We previously identified nodulin-35, the subunit of soybean uricase, as an interacting target of a cytosolic soybean thioredoxin, GmTRX. Here we report the further characterization of the interaction, which turns out to be independent of the disulfide reductase function and results in the co-localization of GmTRX and nodulin-35 in peroxisomes, suggesting a possible function of GmTRX in peroxisomes. In addition, the chaperone function of GmTRX was demonstrated in in vitro molecular chaperone activity assays including the thermal denaturation assay and malate dehydrogenase aggregation assay. Our results demonstrate that the target of GmTRX is not only confined to the nodulin-35, but many other peroxisomal proteins, including catalase (AtCAT), transthyretin-like protein 1 (AtTTL1), and acyl-coenzyme A oxidase 4 (AtACX4), also interact with the GmTRX. Together with an increased uricase activity of nodulin-35 and reduced ROS accumulation observed in the presence of GmTRX in our results, especially under heat shock and oxidative stress conditions, it appears that GmTRX represents a novel thioredoxin that is co-localized to the peroxisomes, possibly providing functional integrity to peroxisomal proteins.     

Wheat Stripe Rust Resistance Protein WKS1 Reduces the Ability of the Thylakoid-Associated Ascorbate Peroxidase to Detoxify Reactive Oxygen Species

Stripe rust is a devastating fungal disease of wheat caused by Puccinia striiformis f. sp tritici (Pst). The WHEAT KINASE START1 (WKS1) resistance gene has an unusual combination of serine/threonine kinase and START lipid binding domains and confers partial resistance to Pst. Here, we show that wheat (Triticum aestivum) plants transformed with the complete WKS1 (variant WKS1.1) are resistant to Pst, whereas those transformed with an alternative splice variant with a truncated START domain (WKS1.2) are susceptible. WKS1.1 and WKS1.2 preferentially bind to the same lipids (phosphatidic acid and phosphatidylinositol phosphates) but differ in their protein-protein interactions. WKS1.1 is targeted to the chloroplast where it phosphorylates the thylakoid-associated ascorbate peroxidase (tAPX) and reduces its ability to detoxify peroxides. Increased expression of WKS1.1 in transgenic wheat accelerates leaf senescence in the absence of Pst. Based on these results, we propose that the phosphorylation of tAPX by WKS1.1 reduces the ability of the cells to detoxify reactive oxygen species and contributes to cell death. This response takes several days longer than typical hypersensitive cell death responses, thus allowing the limited pathogen growth and restricted sporulation that is characteristic of the WKS1 partial resistance response to Pst.     

The interaction of Gα13 with integrin β1 mediates cell migration by dynamic regulation of RhoA

Heterotrimeric G protein Gα₁₃ is known to transmit G protein–coupled receptor (GPCR) signals leading to activation of RhoA and plays a role in cell migration. The mechanism underlying the role of Gα₁₃ in cell migration, however, remains unclear. Recently we found that Gα₁₃ interacts with the cytoplasmic domain of integrin β₃ subunits in platelets via a conserved ExE motif. Here we show that a similar direct interaction between Gα₁₃ and the cytoplasmic domain of the integrin β₁ subunit plays a critical role in β₁-dependent cell migration. Point mutation of either glutamic acid in the Gα₁₃-binding ⁷⁶⁷EKE motif in β₁ or treatment with a peptide derived from the Gα₁₃-binding sequence of β₁ abolished Gα₁₃–β₁ interaction and inhibited β₁ integrin–dependent cell spreading and migration. We further show that the Gα₁₃-β₁ interaction mediates β₁ integrin–dependent Src activation and transient RhoA inhibition during initial cell adhesion, which is in contrast to the role of Gα₁₃ in mediating GPCR-dependent RhoA activation. These data indicate that Gα₁₃ plays dynamic roles in both stimulating RhoA via a GPCR pathway and inhibiting RhoA via an integrin signaling pathway. This dynamic regulation of RhoA activity is critical for cell migration on β₁ integrin ligands.