Natural variation of salinity response,population structure and candidate genes associated with salinity tolerance in perennial ryegrass accessions

Natural variation in salinity response, effects of population structure on growth and physiological traits and gene–trait association were examined in 56 global collections of diverse perennial ryegrass (Lolium perenne L.) accessions. Three population structure groups were identified with 66 simple sequence repeat markers, which on average accounted for 9 and 11% of phenotypic variation for the control and salinity treatment at 300 mm NaCl. Group 1 (10 accessions) had greater plant height, leaf dry weight and water content, chlorophyll index, K⁺ concentration and K⁺/Na⁺ than group 2 (39 accessions) and group 3 (7 accessions) under salinity stress, while group 3 had higher Na⁺ than groups 1 and 2. Eighty‐seven single nucleotide polymorphisms were detected from four partial candidate genes encoding aquaporin and Na⁺/H⁺ antiporter in both plasma and tonoplast membranes. Overall, rapid decay of linkage disequilibrium was observed within 500 bp. Significant associations were found between the putative LpTIP1 and Na⁺ for the control and between the putative LpNHX1 and K⁺/Na⁺ under the control and salinity treatments after controlling population structure. These results indicate that population structure influenced phenotypic traits, and allelic variation in LpNHX1 may affect salinity tolerance of perennial ryegrass.     

光受体UVR8对UV-B响应机制研究进展

来自太阳光谱中的UV-B辐射被认为是一种重要的环境信号,可以被植物感受并诱导植物调整自身生长和发育状态以适应环境。人们对植物中光敏色素、隐花色素和蓝光受体向光素的研究已非常深入,但对植物响应UV-B的机制仅在最近才取得一些突破性进展。这些研究发现,植物中存在着UV-B受体UVR8(UV Resistance Locus 8)。目前认为,UVR8二聚体感应UV-B后瞬间解聚为单体,并与E3泛素连接酶COP1(constitutively photomorphogenic 1)相互作用,从而激活UV-B响应基因的表达。该文从UVR8的发现、UVR8的结构和感受UV-B机制、UVR8二聚体重新形成以及UV-B信号传导与可见光信号传导途径间的差异等方面综述了关于UV-B受体UVR8的最新研究成果。     

干旱胁迫对茉莉3个品种叶片光合特性和超微结构的影响

以茉莉3品种为试材,分析干旱胁迫对光合作用相关生理指标和叶肉细胞超微结构的影响。结果表明,在轻度干旱胁迫下, 单瓣茉莉和多瓣茉莉净光合速率（Pn）、蒸腾速率（Tr）、气孔导度（Gs）和胞间 CO2浓度（Ci）呈下降趋势,但叶肉细胞超微结构仅受轻微影响。在中度干旱胁迫下,多瓣茉莉Pn、Tr、Gs持续降低,而Ci 随干旱胁迫的增加反而上升,单瓣茉莉Pn、Tr、Gs和Ci继续呈下降趋势,两品种叶绿体超微结构发生明显变化并出现伤害症状。在重度干旱胁迫下,Pn、Tr、Gs降幅明显,与对照组相比达极显著差异(P<0.01),Ci 持续上升,叶绿体超微结构发生巨大变化,特别是叶绿体发生严重损伤。双瓣茉莉Pn、Tr、Gs、Ci随干旱胁迫的加重也呈现逐渐下降的趋势,但降幅较小,叶肉细胞超微结构无明显变化。因此,与单瓣茉莉和多瓣茉莉相比较,双瓣茉莉对干旱胁迫的耐受力较强。     

江西玉山上奥陶统凯迪阶三衢山组的丛花海绵(Corymbospongia)*

串管海绵在中–晚奥陶世经历了的首次辐射演化事件, 在北美、新南威尔士、哈萨克斯坦、西伯利亚和中国西北等地的上奥陶统地层中皆有报道, 但研究程度较低。本文系华南奥陶系串管海绵首次系统古生物学的报道, 详细描述江西玉山上奥陶统凯迪阶三衢山组的Corymbospongia (丛花海绵属)化石, 并基于C. amplia Rigby, Karl, Blodgett & Baichtal, 2005和C. mica Rigby & Potter, 1986的标本展示该属化石外壁的微孔等特征性结构, 这2个种具有跨板块的生物地理分布。综合串管海绵产出层的碳酸盐岩微相以及伴生钙藻和珊瑚化石等群落分子的指相参照, 识别C. amplia和C. mica均具有明显的生态专属性: C. amplia为造礁生物, 在小型微生物岩中出现; C. mica则代表适应于更浅水生境的平地群落代表。本研究将为从底栖生物群落角度开展扬子区生物地层学及古地理重建提供进一步的依据。     

Functional annotation signatures of disease susceptibility loci improve SNP association analysis

Background

Genetic association studies are conducted to discover genetic loci that contribute to an inherited trait, identify the variants behind these associations and ascertain their functional role in determining the phenotype. To date, functional annotations of the genetic variants have rarely played more than an indirect role in assessing evidence for association. Here, we demonstrate how these data can be systematically integrated into an association study’s analysis plan.

Results

We developed a Bayesian statistical model for the prior probability of phenotype–genotype association that incorporates data from past association studies and publicly available functional annotation data regarding the susceptibility variants under study. The model takes the form of a binary regression of association status on a set of annotation variables whose coefficients were estimated through an analysis of associated SNPs in the GWAS Catalog (GC). The functional predictors examined included measures that have been demonstrated to correlate with the association status of SNPs in the GC and some whose utility in this regard is speculative: summaries of the UCSC Human Genome Browser ENCODE super–track data, dbSNP function class, sequence conservation summaries, proximity to genomic variants in the Database of Genomic Variants and known regulatory elements in the Open Regulatory Annotation database, PolyPhen–2 probabilities and RegulomeDB categories. Because we expected that only a fraction of the annotations would contribute to predicting association, we employed a penalized likelihood method to reduce the impact of non–informative predictors and evaluated the model’s ability to predict GC SNPs not used to construct the model. We show that the functional data alone are predictive of a SNP’s presence in the GC. Further, using data from a genome–wide study of ovarian cancer, we demonstrate that their use as prior data when testing for association is practical at the genome–wide scale and improves power to detect associations.

Conclusions

We show how diverse functional annotations can be efficiently combined to create ‘functional signatures’ that predict the a priori odds of a variant’s association to a trait and how these signatures can be integrated into a standard genome–wide–scale association analysis, resulting in improved power to detect truly associated variants.

Electronic supplementary material

The online version of this article (doi:10.1186/1471-2164-15-398) contains supplementary material, which is available to authorized users.     

植物逆境胁迫耐受性启动子的研究进展

逆境胁迫如干旱、极端温度、损伤等非生物胁迫和病虫害等生物胁迫严重影响植物的生长发育及产量。逆境胁迫耐受性启动子能够接受逆境条件下的诱导信号,激活植物体内胁迫应答基因的表达,使植物感知并适应逆境。本文对逆境胁迫耐受性启动子的克隆及功能研究情况进行综合分析,主要包括抗旱、耐盐、耐高温、抗冻、耐损伤、抗病和抗虫基因启动子。     

妇肤康喷雾剂对阴道常见微生物增殖影响的体外研究

目的体外了解妇肤康喷雾剂溶液对阴道常见的益生乳杆菌和致病菌的影响,为阴道感染疾病提供药物应用的理论依据,指导临床用药。方法对从中国健康妇女阴道分离的乳杆菌、ATCC阴道来源的加德纳菌和白色念珠菌进行体外培养,以中药制剂妇肤康喷雾剂作为培养基,通过绘制生长曲线,评价妇肤康溶液对阴道常见微生物的影响。结果妇肤康实验组中,乳杆菌和白色念珠菌生长曲线随着时间延长轻微下降。加德纳菌在15h后可完全杀灭。结论体外培养时,妇肤康溶液轻微抑制乳杆菌生长,其能够抑制白色念珠菌生长,可以杀灭加德纳菌。     

单瓣茉莉花发育过程中香精油成分及含量的变化

为探讨单瓣茉莉(Jasminum sambac‘Unifoliatum’)花发育过程中的香精油成分和含量的变化,采用顶空固相微萃取(HSSPME)和气相色谱-质谱联用(GC-MS)技术进行分析。结果表明,单瓣茉莉花在不同发育时期的香精油成分及含量差异明显,花蕾初期、花蕾成熟期、微开期、盛开期和盛开末期分别鉴定出7、25、27、23和16种化学成分。萜烯类化合物是花蕾初期的主要香精油成分,花蕾成熟期、微开期和盛开期的萜烯类、酯类和醇类化合物的含量均较高,是主要的香精油成分,但化合物种类和含量存在较大差异。盛开末期的主要香精油成分是萜烯类和杂环类化合物。单瓣茉莉鲜花的主要化学成分或前体物质在花蕾成熟期基本形成,大部分芳香成分在微开期的含量最高。因此,生产中提取茉莉花精油或熏茶时,应选择微开期的鲜花进行采摘,但在不能及时窨制花茶或提取香精油的情况下,选择花蕾成熟期的花采摘更为合适。     

Costs of receipt and donation of ejaculates in a simultaneous hermaphrodite

Background  

Sexual conflicts between mating partners can strongly impact the evolutionary trajectories of species. This impact is determined by the balance between the costs and benefits of mating. However, due to sex-specific costs it is unclear how costs compare between males and females. Simultaneous hermaphrodites offer a unique opportunity to determine such costs, since both genders are expressed concurrently. By limiting copulation of focal individuals in pairs of pond snails (Lymnaea stagnalis) to either the male role or the female role, we were able to compare the fecundity of single sex individuals with paired hermaphrodites and non-copulants. Additionally, we examined the investment in sperm and seminal fluid of donors towards feminized snails and hermaphrodites.     

Isolation and characterization of microsatellites in giant freshwater prawn Macrobrachium rosenbergii

Microsatellite loci were characterized in a freshwater prawn from enriched genomic library using six biotinylated probes: (AG)₁₀, (TG)₁₀, (CAA)₁₀, (CAG)₁₀, (GAT)₁₀ and (TAC)₁₀. Primers for DNA amplification were designed and synthesized for 20 loci. Ten loci were polymorphic with the number of alleles ranging from five to 17 alleles per locus and the observed heterozygosity ranging from 0.27 to 0.83 per locus. Developed microsatellite primers should prove useful for selective breeding programs and population genetic studies of freshwater prawn.