利用微卫星标记对地方鸡种群体遗传结构的聚类分析

利用29个微卫星标记,通过计算亚群体杂合度（Hs）、总群体杂合度（Ht）、遗传分化系数（Gst）和基因流（Nm）,并基于Reynolds遗传距离、Nei遗传距离运用NJ和UPGMA聚类法构建4类聚类图,比较分析国家地方禽种遗传资源基因库保存的7个地方鸡品种（仙居鸡、鹿苑鸡、固始鸡、大骨鸡、河南斗鸡、狼山鸡、萧山鸡）间的遗传分化和亲缘关系。结果表明,7个地方鸡种29个微卫星座位的总群体杂合度、亚群体杂合度的平均值为0.642,0.551;平均遗传分化系数为0.142。7个地方鸡品种间,萧山鸡与鹿苑鸡的基因流动最大,为5.832 7;狼山鸡与固始鸡的基因流动最小,为0.805 3;基于Reyonalds遗传距离运用NJ聚类法获得的7个鸡种间的亲缘关系聚类图较为准确地反映了7个地方鸡种间的遗传分化和亲缘关系。     

Molecular analysis of the genus Asparagus based on matK sequences and its application to identify A. racemosus, a medicinally phytoestrogenic species

The plant Asparagus racemosus is one of the most widely used sources of phytoestrogens because of its high content of the steroidal saponins, shatavarins I-IV, in roots. The dry root of A. racemosus, known as "Rak-Sam-Sip" in Thai, is one of the most popular herbal medicines, used as an anti-inflammatory, an aphrodisiac and a galactagogue. Recently, the interest in plant-derived estrogens has increased tremendously, making A. racemosus particularly important and a possible target for fraudulent labeling. However, the identification of A. racemosus is generally difficult due to its similar morphology to other Asparagus spp. Thus, accurate authentication of A. racemosus is essential. In this study, 1557-bp nucleotide sequences of the maturase K (matK) gene of eight Asparagus taxa were analyzed. A phylogenetic relationship based on the matK gene was also constructed. Ten polymorphic sites of nucleotide substitutions were found within the matK sequences. A. racemosus showed different nucleotide substitutions to the other species. A polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of the matK gene was developed to discriminate A. racemosus from others. Only the 650-bp PCR product from A. racemosus could be digested with BssKI into two fragments of 397 and 253-bp while the products of other species remained undigested. Ten commercially crude drugs were analyzed and revealed that eight samples were derived from A. racemosus while two samples of that were not. Thus, the PCR-RFLP analysis of matK gene was shown to be an effective method for authentication of the medicinally phytoestrogenic species, A. racemosus.     

百山祖冷杉枝叶营养元素含量与适生立地土壤养分关系分析

研究了百山祖冷杉(Abies beshanzuensis)分布区适生立地表层土壤养分及其与百山祖冷杉枝叶营养元素含量的相关性.结果表明,土壤pH5.11～6.42,土壤有机质含量、全氮含量、速效磷含量、速效钾含量分别为119.075 0g/kg、2.196 2g/kg、15.016 3mg/kg、136.215 2mg/kg;百山祖冷杉对土壤N、P、K富集能力均较高,而对微量元素富集能力较弱,且枝部和针叶均未检出Na元素;较高的土壤N含量,可相应显著提高百山祖冷杉叶N、K含量水平,较高的土壤P含量,则显著抑制百山祖冷杉叶对K和枝对N的积累水平,较高的土壤Cu含量显著降低了Cu元素在叶器官中的积累,而显著增加了枝条中Cu和Zn的积累水平,较高的土壤Fe含量则显著促进了针叶中Fe元素和枝中Fe、Mn元素的积累水平.     

Evaluation of a multi-line broiler chicken population using a single-step genomic evaluation procedure

Effects on prediction of analysing a multi-line chicken population as one line were evaluated. Body weight records were provided by Cobb-Vantress for two lines of broiler chickens. Phenotypic records for 183 695 and 164 149 broilers and genotypic records for 3195 and 3001 broilers were available for each line. Lines were combined to create a multi-line population and analysed using a single-step procedure combining the additive relationship matrix and the genomic relationship matrix (G). G was scaled using allele frequencies from each line, the multi-line population, or 0.5. When allele frequencies were calculated from each line, distributions of diagonal elements were bimodal. When allele frequencies were calculated from the multi-line population, the distribution of diagonal elements had one peak. When allele frequency 0.5 was used, the distribution was bimodal. Genomic estimated breeding values (GEBVs) were predicted using each allele frequency. GEBVs differed with allele frequency but had ≥ 0.99 correlations with GEBVs predicted with correct allele frequencies. Means of each line and differences in mean between the lines differed based on allele frequencies. Assumed allele frequencies have little impact on ranking within line but larger impact on ranking across lines. G may be used to evaluate multiple populations simultaneously but must be adjusted to obtain properly scaled estimates when population structure is unknown.     

Intrapopulation and Interpopulation Genetic Variation of Quercus in Denmark

Native Danish oak stands are fragmented and decreasing because of the extensive use of foreign seed sources. Therefore, the population structure of natural Danish oak stands was analysed by means of six polymorphic enzyme loci. A total of 17 stands of Quercus robur L. (including an ''outgroup'' sample from The Netherlands), seven Quercus petraea [Matt.] Liebl. and two putative hybrid stands were included in the study. The average genetic diversity was similar for the two species as well as for the putative hybrid stands: 0.25 for Q. robur, 0.27 for Q. petraea and 0.26 for the hybrid stands. The genotypic proportions at two (Pgm and Mnr) of the six loci showed many significant deviations from Hardy-Weinberg expectations, always with an excess of homozygotes, whereas the remaining four loci accorded to Hardy-Weinberg proportions, suggesting a low level of inbreeding. The differentiation of the Q. petraea and Q. robur populations was quantified with Wright's F-statistics. The within-species component was low, 0.022, reflecting the wind-pollinated reproductive mode of the two species. The betweenspecies component was 10-fold higher, 0.235, indicating two separate groups. A phylogenetic tree estimated from allele frequencies also supported the presence of these two groups. Despite the two well-separated groups in the tree, it was not possible to assign all individuals to the species to which they supposedly belonged. In total, 10% of the Q. robur individuals and 14% of the Q. petraea individuals were assigned to the other species, suggesting a limited amount of introgression between the two species.     

Molecular Markers in Population Genetics of Forest Trees

Rapid progress is being made in many areas of forest population genetics owing to the newly available molecular techniques and the fast growth of genomic and sequence data. This paper reviews the currently available genetic markers and their applications in studies on gene diversity, population structure and differentiation, gene flow, introgression, phylogeny and gene evolution. Various marker-based population analyses have highlighted the evolutionary history of many tree species. However, up to now, genetic markers have not fulfilled the expectations for studies on the adaptive variation and the effects of natural selection on forest tree populations. Studies based on integrated and extensive genome sampling, especially the coding regions of the genome, in combination with adaptive traits can potentially improve this situation. This would provide us with a comprehensive knowledge of the evolutionary mechanisms shaping the population changes, both adaptive and neutral.     

Genetic parameters of growth and wood quality traits in Picea abies

Genetic parameters were estimated for wood and growth traits in two 19-yr-old clonal trials and a 40-yr-old full-sib progeny trial of Norway spruce [Picea abies (L.) Karst.]. In the clonal trials high (>0.4) broad-sense heritabilities were found for wood density traits, lignin content, number of internal cracks, growth traits, spiral grain and number of resin canals. Moderate (0.2–0.4) heritabilities were found for tracheid lumen diameter and cell wall thickness, microfibril angle and tracheid length, while low heritabilities (<0.2) were found for pulp yield, fibre strength, wood stiffness and wood colour. Lignin content and pulp yield showed low genetic variation, whereas the genotypic coefficient of variation for most other traits ranged between 5 and 15%. Most traits showed low levels of genotype by environment interaction. Among the wood properties, latewood proportion, earlywood density and ring density showed significant, adverse correlations with volume in both clonal trials.     

A fine-scale model for area-based predictions of tree-size-related attributes derived from LiDAR canopy heights

Abstract

We propose a conceptual (generic) allometric (power function) relationship between tree-size-related forest inventory attributes (e.g. biomass, volume, basal area, quadratic mean diameter, Lorey's height) and canopy height (CH) as estimated from first-return airborne light detection and ranging (LiDAR) pulses. A data-driven estimation of the parameters in the power function is complicated, so we recommend an alternative approximation obtained via a linearisation step. Only two predictors appear in the approximation: the mean CH and the variance of CHs within the spatial domain supported by field data. The proposed model eliminates an otherwise complex search for the best predictors amongst a large number of candidate LiDAR metrics. It also facilitates model comparisons and interpretation. Fit statistics estimated for volume, basal area, quadratic mean diameter and Lorey's height – using three separate datasets from Norway – were compelling.     

草莓属种质资源亲缘关系的SSR 标记分析

 用20对SSR引物对草莓属83份资源包括14个种和自然五倍体以及未鉴定的材料进行PCR扩增。在20个SSR位点共获得363个等位基因。每个位点扩增等位基因8 ~ 34个,平均18.2个,各位点多态性信息含量（PIC）在0.6691 ~ 0.9431,平均为0.8598。聚类分析表明,同属一个种的草莓资源被紧密地聚在一起。以种为单位,3个八倍体种智利草莓、弗州草莓和栽培种凤梨草莓亲缘关系很近,而八倍体种与其他低倍性野生种亲缘关系较远;在低倍性草莓种中,伞房草莓、五叶草莓、日本草莓、蝦夷草莓、高原草莓、黄毛草莓和绿色草莓聚在一组,具有较近的亲缘关系,而森林草莓、东北草莓、东方草莓、麝香草莓和自然五倍体草莓聚在一组,具有较近的亲缘关系。自然五倍体草莓可能起源于森林草莓或东北草莓与东方草莓或麝香草莓的自然杂交。     

4 份野生瓜类材料抗病性及形态特征和SSR 亲缘关系研究

 对4份野生瓜类材料进行抗病性鉴定、形态学性状调查、细胞学鉴定及SSR亲缘关系分析。结果表明,4份野生材料分别为野生红瓜[Coccinia grandis（L.）Voigt],野生小马泡（Cucumis bisexualis A. M. Lu et G. C. Wang ex Lu et Z. Y. Zhang）,野生栝楼（Trichosanthes L.）和野生红籽瓜（Citrullus lanatus ssp. vulgaris var. megalaspermusLin et Chao）,染色体数依次为2n = 24,2n = 24,2n = 22,2n = 22。4份野生材料野生性状明显,部分食用价值低劣,难以直接利用,但其表现出植株生长茂盛,其中野生红瓜、野生栝楼和野生红籽瓜材料高抗枯萎病和白粉病,野生小马泡材料感枯萎病和白粉病。从130对SSR引物组合中筛选出15对引物分析供试材料,共得到271条清晰可辨条带,其中多态性条带124条,多态性条带百分率为45.8%。4份野生材料与4种瓜类（甜瓜、黄瓜、西瓜、南瓜）栽培品系间的相似系数为0.62 ~ 0.96。WINBOOT程序聚类分析表明,野生红瓜、野生小马泡、野生栝楼和野生红籽瓜分别与黄瓜、甜瓜、南瓜和西瓜亲缘关系最近。