基于高通量测序技术的微生物检测数据分析方法

高通量测序技术的发展正在逐渐改变诸多生物学领域的研究方法.为应对突发疫情以及新发未知微生物威胁的需求,微生物鉴定技术逐渐从传统的物理化学方法及核酸杂交等分子水平方法进一步走向利用无需培养的测序数据进行快速分析检测.随之而来的是对高通量数据分析在精度及速度的要求.基于高通量测序数据的微生物检测数据分析方法在近些年得到了快速的发展.本文分析了目前基于高通量测序数据的微生物检测数据分析方法,对其数据分析的处理流程和计算方法进行了研究,比较了各个微生物检测数据分析方法的特点及适用场景.最后结合本实验室工作总结微生物检测数据分析方法在实际应用中可能遇到的问题,希望对该应用领域的研究有一定的参考意义.     

胡杨无性系幼苗响应盐胁迫的miRNA表达差异研究

植物miRNA在调控基因表达、细胞周期、生物体发育、抗逆等方面起重要作用。为研究胡杨(Populus euphratica Oliv.)的耐盐机制,以1年生胡杨无性系幼苗为材料,构建具有空间代表性的盐胁迫胡杨cDNA文库,利用二代测序技术测定NaCl胁迫下和正常培养条件下胡杨叶和根miRNA表达情况。结果表明,不同的miRNA之间表达量存在明显差异,表达丰度最高的miRNA有miR156、miR157、miR165、miR166和miR167等,合计占总表达量的90%以上。胡杨根部存在特异表达的miRNA,在整个耐盐调控机制中发挥着生理调节、分子调控和信号传导等极为重要的作用。盐处理样品中发现大量响应盐胁迫的miRNA,对这些转录因子进行靶基因预测和注释后,发现很多盐胁迫响应的miRNA与NAC和SPL等重要转录因子家族相关,与前人的结论一致,另外还发现许多miRNA的调控对象是ATP酶和激素响应因子。     

Microsatellite DNA markers for Lysiphlebus testaceipes

Microsatellite loci were isolated from the aphid parasitoid Lysiphlebus testaceipes (Hymenoptera: Braconidae). Ten loci were obtained from an enriched partial genomic library. Genetic diversity was analysed at seven of these loci and two natural populations, one on oleander and one on citrus. The observed number of alleles ranged from one to 17, and the observed heterozygosity ranged from 0.37 to 0.82. In both populations, no departure from Hardy–Weinberg equilibrium was detected except for one locus. The differentiation between the two populations was characterized by an F_ST of 0.09.     

JURASSIC PALAEONTINIDAE FROM CHINA AND THE HIGHER SYSTEMATICS OF PALAEONTINOIDEA (INSECTA: HEMIPTERA: CICADOMORPHA)

Abstract:  Genera of Palaeontinidae (Insecta, Hemiptera: Cicadomorpha) are reviewed based on some newly-discovered material. An updated list of palaeontinid genera is provided. The genus Palaeontinopsis Martynov is assigned to Palaeontinidae incertae sedis . A new genus and species, Ningchengia aspera gen. et sp. nov., is described based on forewings and hindwings from the Middle Jurassic of Daohugou, China. Fletcheriana colorata Wang, Zhang and Fang and F . minuta Wang, Zhang and Fang are transferred to Suljuktocossus and Ningchengia respectively, resulting in Suljuktocossus coloratus comb. nov. and Ningchengia minuta comb. nov. Papilioncossus Wang, Ren and Shih, 2007 syn. nov. is considered to be a junior synonym of Eoiocossus Wang and Zhang, 2006 and Quadraticossus Wang and Ren 2007 syn. nov. is a junior synonym of Sinopalaeocossus   Hong, 1983 . The genus Fletcheriana is believed to represent a transition between Dunstaniidae and Palaeontinidae. This result is consistent with the previous view that Dunstaniidae is ancestral to Palaeontinidae. Furthermore, Suljuktocossus is a transitional genus between Fletcheriana and Cretaceous palaeontinids. The fusion of veins RP and M₁ in the palaeontinid hindwings implies a change of the mechanism of flight and an improvement in flight ability. The presence of a reduced costal area and the rigid basal leading edge of the palaeontinid forewings suggest gain of lift.     

Structure and diversity of the Mesozoic wood genus Xenoxylon in Far East Asia: implications for terrestrial palaeoclimates

Although the faunal elements of Far East Asian Mesozoic terrestrial biota have attracted much attention in recent years, their palaeoecology remains poorly known. In particular, features of the palaeoclimate are highly controversial. To address this point we used the Mesozoic fossil wood Xenoxylon , a genus recognized as an indicator of wet temperate biotopes and which is common in the area during the Carnian–Maastrichtian interval. We re-appraised bibliographic data and gathered new data for Xenoxylon in the Mesozoic of Far East Asia. This demonstrated that previous taxonomic approaches to the genus have been so far idiosyncratic. We examined the anatomical diversity of morphogenus Xenoxylon in Far East Asia and compared it to that of samples from Europe. This indicates that in an area centred on north-eastern China, Xenoxylon reached a level of anatomical diversity unmatched elsewhere in the world. We hypothesize that this diversity witnesses the persistence of palaeoecological conditions particularly suitable for Xenoxylon and that a wet temperate climate prevailed over most of the area throughout the Carnian–Maastrichtian interval. It is in this setting that the famous Jehol Biota probably evolved.     

刺五加提取物对断奶仔猪血常规和抗氧化功能的影响

为研究日粮添加刺五加提取物对断奶仔猪血常规和抗氧化功能的影响,选择21日龄断奶仔猪60头,随机分为3个处理,每个处理20个重复,单栏饲养,分别饲喂基础日粮+0.1%刺五加提取物、基础日粮+0.02%粘杆菌素和基础日粮.于试验开始后第7、14和28 d每个处理随机选取5头试猪,前腔静脉采血,测定血常规和抗氧化指标.结果表明:刺五加提取物能显著改善断奶仔猪的抗病能力,减轻应激反应,机体抗氧化酶活性明显升高;第7 d时提取物组MID、PLT、MDA和NO含量显著小于基础日粮组(P＜0.05);第14 d时提取物组WBC显著小于、CAT活性显著大于基础日粮组(P＜0.05);第28 d时提取物组WBC、MID和GRA显著小于(P＜0.05),SOD活性大于基础日粮组(P＞0.05).     

Longevity differs among sexes but is not affected by repeated immune activation in voles (Microtus arvalis)

Investment of resources in immune defences, despite obvious short-term benefits, may be detrimental to long-term maintenance and thus decrease longevity in absence of parasites. In addition, females and males may differ in immune investment and intrinsic longevity because they are subjected to different degrees of sexual competition and extrinsic mortality. In order to test if sex-specific investment in mounting an immune response reduced longevity, we compared the longevity of captive male and female common voles Microtus arvalis regularly challenged with keyhole limpet haemocyanin, an antigen which elicits the production of antibodies, to the longevity of voles injected with the corresponding antigen-free buffer (phosphate-buffered saline). Injections were repeated every 28 days to mimic a chronic infection. The magnitude of immune response did not vary between males and females and did not affect longevity. Overall, females lived longer than males, independently of the immune challenge. Thus, the long-term costs of immunity seem small in voles. The longevity pattern is consistent with the prediction that male-biased predation or parasitism in the wild causes reduced intrinsic lifespan, but this reduction is not mediated by a decrease in male immunity.  © 2009 The Linnean Society of London, Biological Journal of the Linnean Society , 2009, 97 , 328–333.     

Galápagos' Opuntia (prickly pear) cacti: extensive morphological diversity, low genetic variability

Due to the pronounced morphological variation and geographical distribution of Galápagos' Opuntia cacti, numerous hypotheses have been advanced regarding their radiation, diversification, and classification. The currently accepted classification is based on morphology and recognizes six species and fourteen varieties, but the plasticity of many of the characteristics renders any morphological taxonomy problematic. Our analysis of previously published morphological data agrees only partially with the current classification. We present the first molecular phylogeny of these plants. Multiple DNA sequences indicate little genetic distinction among the currently identified species, despite restricted gene flow and limited long distance dispersal within the archipelago. No clear relationship exists between morphological and genetic differences. These results suggest that both molecular and morphological data should be used in conservation planning.  © 2009 The Linnean Society of London, Biological Journal of the Linnean Society , 2009, 96 , 451–461.