西藏藏族起源初探——来自掌指纹的线索

本文采用分层整群抽样的调查方法捺印1183名藏族青少年的掌指纹, 分析掌指纹参数,然后与其他56个群体的掌指纹参数进行聚类分析, 进而从肤纹学角度探讨藏族的起源。发现藏族指纹以斗型纹为主(52.89%), 其次为箕型纹(42.95%), 弓形纹出现频率最低(4.16%); 总指嵴线计数为139.01(其中男性为144.75, 女性为133.87); atd角在男性为42.95°, 女性为43.28°。掌指纹参数聚类分析显示: 藏族与汉族和氐羌氏族的后裔(门巴族、普米族、羌族等)等我国北方人群聚在一起。因而从肤纹学角度推断藏族与汉族和氐羌氏族的亲缘关系较近, 而与印度人和孟加拉人的亲缘关系较远。     

祁连山地区植被特征及其分布规律

分析和讨论了祁连山地区主要植被类型及其分布特征。祁连山地区随着青藏高原的强烈隆升表现为整体抬升,植被具有明显的生态地理边缘效应特征和高原地带性规律。该区植被虽然受到四周的较大影响,但各类高寒植被占有绝对优势,表现出与青藏高原植被整体明显的相似性和广泛的一致性。另一方面,本区植被也有其特殊性及与高原面存在一些差异。因此,建议把祁连山地区做为青藏高原植被区的次一级独立单元     

Gramicidin A channel as a test ground for molecular dynamics force fields

We use the well-known structural and functional properties of the gramicidin A channel to test the appropriateness of force fields commonly used in molecular dynamics (MD) simulations of ion channels. For this purpose, the high-resolution structure of the gramicidin A dimer is embedded in a dimyristoylphosphatidylcholine bilayer, and the potential of mean force of a K(+) ion is calculated along the channel axis using the umbrella sampling method. Calculations are performed using two of the most common force fields in MD simulations: CHARMM and GROMACS. Both force fields lead to large central barriers for K(+) ion permeation, that are substantially higher than those deduced from the physiological data by inverse methods. In long MD simulations lasting over 60 ns, several ions are observed to enter the binding site but none of them crossed the channel despite the presence of a large driving field. The present results, taken together with many earlier studies, highlights the shortcomings of the standard force fields used in MD simulations of ion channels and calls for construction of more appropriate force fields for this purpose.     

The Central Theme of Parkinson’s Disease: α-Synuclein

Parkinson’s disease (PD) is the second most common neurodegenerative disorder, defined by the presence of resting tremor, muscular rigidity, bradykinesia, and postural instability. PD is characterized by the progressive loss of dopaminergic neurons within the substantia nigra pars compacta of the midbrain. The neuropathological hallmark of the disease is the presence of intracytoplasmic inclusions, called Lewy bodies (LBs) and Lewy neurites (LNs), containing α-synuclein, a small protein which is widely expressed in the brain. The α-synuclein gene, SNCA, is located on chromosome 4q22.1; SNCA-linked PD shows an autosomal dominant inheritance pattern with a relatively early onset age, and it usually progresses rapidly. Three missense mutations, A53T, A30P, and E46K, in addition to gene multiplications of the SNCA have been described so far. Although it is clear that LBs and LNs contain mainly the α-synuclein protein, the mechanism(s) which leads α-synuclein to accumulate needs to be elucidated. The primary question in the molecular pathology of PD is how wild-type α-synuclein aggregates in PD, and which interacting partner(s) plays role(s) in the aggregation process. It is known that dopamine synthesis is a stressfull event, and α-synuclein expression somehow affects the dopamine synthesis. The aberrant interactions of α-synuclein with the proteins in the dopamine synthesis pathway may cause disturbances in cellular mechanisms. The normal physiological folding state of α-synuclein is also important for the understanding of pathological aggregates. Recent studies on the α-synuclein protein and genome-wide association studies of the α-synuclein gene show that PD has a strong genetic component, and both familial and idiopathic PD have a common denominator, α-synuclein, at the molecular level. It is clear that the disease process in Parkinson’s disease, as in other neurodegenerative disorders, is very complicated; there can be several different molecular pathways which are responsible for diverse and possibly also unrelated functions inside the neuron, playing roles in PD pathogenesis.     

大鼠胫骨近端骨骺损伤后骨桥形成分子机制的研究

利用胫骨近端干骺端骨骺损伤的大鼠动物模型,研究骨桥形成的分子病理机制.通过Alcian blue染色观察损伤模型的建立、损伤愈合过程以及骨桥形成情况.采用Tunel试剂盒原位细胞凋亡检测,了解损伤区及周围细胞凋亡情况.利用免疫组织化学及原位杂交实验,观察损伤区周围软骨细胞改变,检测损伤区是否有软骨细胞生成,检测刀Ihh以及Ptch1表达阳性细胞.发现骨骺损伤骨桥形成过程中,完全损伤区中心没有软骨细胞特异的因子Col2al和ColX以及删Ihh和Ptch1的表达,但是完全损伤区和周围正常软骨交界间存在次损伤软骨区,存在软骨细胞凋亡,有Col X的表达,vimentin检测发现,在此区和周围正常软骨间有正常肥大区软骨细胞异常分化而来的成纤维样细胞并形成软骨外膜样结构,次损伤区和软骨外膜结构逐渐被骨桥替代,在此过程中软骨外膜样结构存在Collal、Ptch1和Ihh的表达,提示Ihh可能参与骨桥形成过程.提出骨桥形成过程中损伤中心区域存在膜内化骨,边缘区域存在软骨化骨作用机制.     

Development of genome-wide insertion and deletion markers for maize,based on next-generation sequencing data

Background

Insertions and deletions (indels) are the most abundant form of structural variation in all genomes. Indels have been increasingly recognized as an important source of molecular markers due to high-density occurrence, cost-effectiveness, and ease of genotyping. Coupled with developments in bioinformatics, next-generation sequencing (NGS) platforms enable the discovery of millions of indel polymorphisms by comparing the whole genome sequences of individuals within a species.

Results

A total of 1,973,746 unique indels were identified in 345 maize genomes, with an overall density of 958.79 indels/Mbp, and an average allele number of 2.76, ranging from 2 to 107. There were 264,214 indels with polymorphism information content (PIC) values greater than or equal to 0.5, accounting for 13.39 % of overall indels. Of these highly polymorphic indels, we designed primer pairs for 83,481 and 29,403 indels with major allele differences (i.e. the size difference between the most and second most frequent alleles) greater than or equal to 3 and 8 bp, respectively, based on the differing resolution capabilities of gel electrophoresis. The accuracy of our indel markers was experimentally validated, and among 100 indel markers, average accuracy was approximately 90 %. In addition, we also validated the polymorphism of the indel markers. Of 100 highly polymorphic indel markers, all had polymorphisms with average PIC values of 0.54.

Conclusions

The maize genome is rich in indel polymorphisms. Intriguingly, the level of polymorphism in genic regions of the maize genome was higher than that in intergenic regions. The polymorphic indel markers developed from this study may enhance the efficiency of genetic research and marker-assisted breeding in maize.

Electronic supplementary material

The online version of this article (doi:10.1186/s12864-015-1797-5) contains supplementary material, which is available to authorized users.