5种鲟鱼免疫球蛋白重链恒定区序列研究

为了探讨几种鲟鱼免疫球蛋白(IgM)所包含的信息与其亲缘和进化之间的关系, 分别对俄罗斯鲟(Acipenser. gueldenstaedtii)、小体鲟(A. ruthenus)、施氏鲟(A. schrenckii)、中华鲟(A. sinensis)和欧鳇(Huso huso)的IgM重链(IgH)恒定区进行了研究。采用RT-PCR的方法对IgH核酸序列进行了克隆, 通过软件获得了相应的IgH氨基酸序列。在分别对这5种鲟鱼免疫球蛋白重链恒定区4个区(CH1～CH4)进行研究后发现, 其CH4区氨基酸序列相似性最高。通过对CH4区序列氨基酸变异期望值(Kaa), 物种分化时间(T)及物种间系统进化树(Phylogenetic Tree)等参数的分析, 将克隆的5种鲟鱼IgH恒定区序列与已发表的西伯利亚鲟同源序列比对(源于NCBI序列)后发现: 西伯利亚鲟与俄罗斯鲟、施氏鲟与欧鳇、小体鲟各构成一个分支, 并与中华鲟相对。实验结果从体液免疫系统的演化这个角度, 反映了被研究的鲟鱼物种间的分类地位、地理分布及进化关系之间的联系。     

中华鲟(Acipenser sinensis)及相关种类的mtDNA控制区串联重复序列及其进化意义

采用 PCR技术和 DNA测序技术 ,发现了我国一级珍稀保护动物中华鲟 ( Acipensersinensis)线粒体 DNA( mt DNA)的控制区 ( D- loop)存在数目不等的串联重复序列 ,该重复序列造成了中华鲟广泛的异质性现象 .从分子水平进行了不同类型重复序列变化规律的研究 ,同时还初探了重复序列在我国其它几种鲟鱼类的存在情况 ,发现在白鲟 ( Psephurus gladius)、达氏鲟 ( A.dabryanus)和史氏鲟 ( A.schrenckii)均存在类似的重复序列结构 .序列比较分析表明 ,不同鲟鱼类重复序列在鲟鱼类进化过程中扮演着一定的角色 ,很有可能碱基差异大小与它们的亲缘关系的远近呈正相关 .     

奥密克戎BA.1变异株在全球的流行和刺突蛋白的进化分析

新型冠状病毒Omicron变异株出现之后，在全球暴发流行过程中不断进化出传播速度更快、免疫逃逸能力更强的进化分支，为了探究BA.1变异株在全球暴发流行的特征及刺突蛋白(Spike,S)基因的进化特征，本研究对其全基因序列的全球报告情况和S基因的进化特征进行了分析。本文通过全球共享流感数据倡议组织(Global Initiative of Sharing All Influenza Data,GISAID)获取Omicron BA.1系列变异株的全基因序列信息，分析BA.1系列变异株S基因氨基酸突变并构建系统进化树和进行贝叶斯系统进化分析。本研究提示全球约有1.2亿人被BA.1系列变异株感染，全球提交的BA.1系列变异株序列数在其出现2个月后达到高峰，5个月后占新型冠状病毒的比例下降到4.38%，累计提交BA.1全基因序列最多的区域是欧洲、美洲；截止2022年10月，BA.1系列变异株中序列提交数占绝对优势的是BA.1.1(42.07%)，其次是BA.1(18.81%)。对S基因的氨基酸变异分析显示BA.1有56个进化分支，其中48个分支稳定遗传了Omicron原始株S蛋白中的18个氨基...     

原羚属分类地位研究兼论中国羚羊的分类

中国羚羊类动物在世界羚羊类动物中有着特殊的地位,其中普氏原羚、藏原羚和藏羚是中国特有的珍稀物种,普氏原羚是极度濒危动物.开展中国羚羊类动物的分类和进化研究是当务之急.本研究利用形态特征、头骨测量及线粒体DNA的12S rRNA(440 bp)和16S rRNA(590 bp)对原羚属的分类地位及中国其他几种羚羊分类地位进行了探讨,发现对质量性状和数量性状数据的聚类分析的结果差异大,而且质量性状的聚类结果比较符合传统的分类系统.分子分类也得到相似结果,但在属下的分析存在较大差异.7种牛科动物的12S rRNA和16S rRNA序列差异分别为0.2%～7.1%和0.3%～8.4%.系统进化分析表明原羚属3种羚羊形成单系群,且蒙古瞪羚与普氏原羚的关系较藏原羚与普氏原羚的关系近.赛加羚应归宿于羚羊亚科,而不是与羊亚科的藏羚形成独立的赛加羚亚科.原羚属的进化可能与青藏高原的隆起有关.     

鲟鱼心外膜脓肿的病理学初步研究

作为新的养殖对象,我国各地先后开展了中华鲟(Acipenser sinensis Gray)、施氏鲟(A.schrenckii Brandt),以及引进的俄罗斯鲟(A.gueldenstaedti Brandt)、杂交鲟等鲟鱼人工养殖,由于养殖刚刚起步且养殖集约化程度较高等诸多因素,出现了多种新的非寄生性疾病,并造成大量死亡,经济损失极其严重,成为当前鲟鱼试养阶段的制约因素。1999年北京市一家鲟鱼养殖试验场鲟鱼患病,经检验和诊断,确诊为“鲟鱼心外膜脓肿”.本文报道了该病的病理解剖和组织病理学研究结果,为疾病的临床检验与诊断及有效控制提供科学依据。       

4种鲟鱼养殖亲鱼群体遗传多样性分析

近年鲟鱼人工繁殖技术促进了鲟鱼养殖业的发展,但在选育初期未对后备亲鱼进行遗传背景分析,为了抑制种质资源退化和防止近交衰退,繁育场需要对现有后备亲鱼进行遗传背景分析.本文利用线粒体控制区(D-loop)部分序列对4种养殖鲟鱼后备亲鱼群体(共120个样本)的遗传多样性进行了分析.研究发现不同种鲟鱼D-loop部分序列长度不...     

高产β-葡萄糖苷酶N1菌株的分类鉴定

从纳豆中分离纯化得到1株β-葡萄糖苷酶高产菌株,命名为N1菌,利用16S rDNA分析对该菌作了系统进化鉴定.首先提取N1菌基因组DNA,根据不同种属细菌的16S rDNA序列两端的保守性设计通用引物,对N1菌16S rDNA片断进行PCR扩增,对扩增得到的目标片段测序,利用BLAST对测序结果进行比对,构建系统进化树进行分析,初步确定该菌属于枯草芽孢杆菌.研究表明以16S rDNA分析对该菌鉴定完全可行.     

ITS假基因对栎属系统学研究的影响及其对分子系统学研究的启示

核糖体rDNA ITS是被子植物系统发育研究中应用最广泛的分子标记之一。以前人们认为同一物种中的ITS序列因致同进化而使不同拷贝高度一致,在分子系统学研究中常以ITS1-5.8S-ITS2序列作为构建系统进化树的基础。近年来,在对一些被子植物的研究中发现这段序列在同一物种中具有多态性,有些拷贝中的5．8S区不具编码功能,人们把含有不具编码功能5．8S区的ITS1-5．8S-ITS2序列定义为ITS假基因序列,它对同源基因致同进化的假设形成了新的挑战。在诸多应用ITS序列重建系统进化关系的研究中,栎属系统学研究因ITS假基因的发现而倍受关注。本文以栎属为例回顾了ITS假基因的发现过程,分析了其对该属系统学研究的影响,为分子生物学在植物系统进化研究中的应用提供一些新的参考。     

鲟鱼性别分化相关基因研究进展

鲟鱼是目前世界上最古老的鱼类之一,其肉质鲜美,营养丰富,鱼卵加工成的鱼子酱具有极高的经济价值。鲟鱼鱼子酱价格居高不下,因此养殖雌性鲟鱼比养殖雄鱼具有更高的经济前景。由于鲟鱼外形无法辨别雌雄,目前,通常借助超声波、内窥镜等仪器进行早期性别鉴定,但鉴别准确性无法保证。因此采用现代分子生物学技术探究鲟鱼性别决定及性别分化机制有助于早期鲟鱼性别鉴定技术的开发及实现鲟鱼全雌化苗种培育。总结了鱼类性别决定与性别分化相关基因的研究现状,综述了目前在鲟鱼上性别决定与性别分化相关基因的研究进展并预测了未来的研究方向及研究趋势。     

裂解褐藻胶海洋微生物的分离筛选及其功能基因进化分析

本研究以褐藻酸钠为唯一碳源,从广西茅尾海采集的海藻和海水样品中分离获得了10株高产褐藻胶裂解酶(Alginate lyase)的菌株,经过16S rDNA系统发育分析,初步确定这些菌株分别属于盐单胞菌属、假交替单胞菌属和弧菌属.为进一步了解褐藻胶裂解酶(ALG)功能基因的进化轨迹,本研究从GenBank收集了alg基因的同源序列.通过系统发育分析和极大似然分析,运行位点模型和分支位点模型进行了计算,确定该基因存在正选择现象.正选择进化分析结果表明4Y、16I、40N、61L、91T、99S、149L和154S为alg基因的正选择位点,提示环境选择压力促进了alg基因的进化.本研究为后续褐藻胶裂解酶定向诱变或残基的结构与功能之间的作用机制等相关研究提供重要的科学依据和理论支撑.     

Genomic organization and evolution of the 5S ribosomal DNA in the ancient fish sturgeon.

Ribosomal DNA in sturgeon is informative when analyzed at the molecular level because it bears unique characteristics that are, to a certain extent, ancestral within vertebrates. In this paper, we examine the structure and the molecular evolution of the 5S ribosomal DNA (rDNA) region in 13 sturgeon species, comparing both the 5S ribosomal RNA (rRNA) genes and the non-transcribed spacer (NTS) sequences between the coding regions. We have found that different NTS and 5S gene variants are intermixed in the 5S rDNA arrays of the different sturgeon species and that all variants are ancestral, having been maintained over many millions of years. Using predictive models, we have found similar levels of sequence diversity in the coding regions, as well as in the non-coding region, but fixed interspecific differences are underrepresented for 5S genes. However, contrary to the expectations, we have not found fixed differences between NTS sequences when comparing many pairs of species. Specifically, when they belong to the same phylogeographic clade of the four into which the sturgeon is divided, but fixation of mutations and divergence is found between species belonging to different phylogeographic clades. Our results suggest that the evolution of the two parts of the 5S rDNA region cannot be explained exclusively as the outcome of a balance between mutational, homogenizing (i.e., gene conversion as a predominant force in sturgeon), and selective forces. Rather, they suggest that other factors (i.e., hybridization) might be superimposed over those forces and thus could to some extent be masking their effects.     

Sound Production in Sturgeon Scaphirhynchus albus and S. platorynchus (Acipenseridae)

Sound production has been recently discovered in several species of Acipenser. Our work has focused on testing for sound production in species of sturgeon in the genus Scaphirhynchus. We discovered that pallid sturgeon Scaphirhynchus albus and shovelnose sturgeon, S. albus produce sounds during the breeding season. These signals may be used as part of efforts to localize populations of sturgeon in the field, including the Alabama sturgeon, S. suttkusi.     

Conservation and collection efforts for the endangered Alabama sturgeon (Scaphirhynchus suttkusi)

The Alabama sturgeon (Scaphirhynchus suttkusi) is the rarest and most endangered sturgeon species in North America. Over an 8‐year period, the Alabama Division of Wildlife and Freshwater Fisheries, U.S. Army Corps of Engineers, and U.S. Fish and Wildlife Service cumulatively expended 2447 man‐days in efforts to collect Alabama sturgeon broodstock in an attempt to initiate a conservation propagation program. Out of nearly 29 000 fishes collected between March 1997 and May 2005, only five were Alabama sturgeon. Attempts to spawn and propagate these sturgeons were unsuccessful, and all have since died in captivity. In context with past collection efforts and anecdotal accounts, these results indicate that the Alabama sturgeon is becoming increasingly rare with the passage of time. Although there is evidence that some level of recruitment continued to occur in the Alabama River during the past decade, the increasing rarity of Alabama sturgeon suggests that mortality rates are exceeding recruitment.     

Microsatellite variation among River Sturgeons of the genus Scaphirhynchus (Actinopterygii: Acipenseridae): a preliminary assessment of hybridization*

Microsatellite variation from 13 disomic loci is reported for a total of 208 individuals of the genus Scaphirhynchus. This includes 105 individuals of the pallid sturgeon (Scaphirhynchus albus) from the lower Mississippi River, 11 pallid sturgeon from the Upper Mississippi and Missouri rivers, 65 shovelnose sturgeon (S. platorynchus) from the lower Mississippi River, six Alabama sturgeon (S. suttkusi), and 21 individuals of sturgeon identified as intermediate between S. albus and S. platorynchus. Results indicate that all five of the above population/species units are significantly differentiated from one another based on pairwise F_ST estimates. Locus Spl‐7 was diagnostic for the Alabama sturgeon and serves to further differentiate this allopatric species from other Scaphirhynchus. Classification of genotypes with and without a priori designations failed to clearly delineate the species and intermediates in the latter case but was successful for the species but not in the intermediates in the former case. The presence of six unique alleles in five of the 21 morphologically ‘intermediate’ sturgeon examined requires additional evaluation but suggests that these individuals are possibly not the result of hybridization. We hope that raising these important issues will bring all stakeholders to the table to establish a concerted effort needed for both morphological and molecular analyses to adequately address the question of hybridization and the origin of the morphological variation in these fishes.     

Physical and hormonal examination of Missouri River shovelnose sturgeon reproductive stage: a reference guide

From May 2001 to June 2002 Wildhaber et al. (2005) conducted monthly sampling of Lower Missouri River shovelnose sturgeon (Scaphirhynchus platorynchus) to develop methods for determination of sex and the reproductive stage of sturgeons in the field. Shovelnose sturgeon were collected from the Missouri River and ultrasonic and endoscopic imagery and blood and gonadal tissue samples were taken. The full set of data was used to develop monthly reproductive stage profiles for S. platorynchus that could be compared to data collected on pallid sturgeon (Scaphirhynchus albus). This paper presents a comprehensive reference set of images, sex steroids, and vitellogenin (VTG, an egg protein precursor) data for assessing shovelnose sturgeon sex and reproductive stage. This reference set includes ultrasonic, endoscopic, histologic, and internal images of male and female gonads of shovelnose sturgeon at each reproductive stage along with complementary data on average 17‐β estradiol, 11‐ketotestosterone, VTG, gonadosomatic index, and polarization index.     

Genetic distinction of pallid, shovelnose, and Alabama sturgeon: emerging species and the US Endangered Species Act

The sturgeon genus Scaphirhynchus consists of threerecognized species. Pallid and shovelnose sturgeon (S. albusand S. platorynchus, respectively) are sympatric in theMissouri and lower Mississippi Rivers of the central United States. TheAlabama sturgeon (S. suttkusi) is endemic to the nearby MobileRiver drainage and is isolated geographically from the other twospecies. Pallid sturgeon and the extremely rare Alabama sturgeon arelisted as endangered under the US Endangered Species Act (ESA).In contrast, shovelnose sturgeon are relatively common and are notlisted. Despite these taxonomies and morphological evidence, somebiologists have questioned the genetic and taxonomic distinctions of thethree species, thus raising doubts concerning the validity of protectingpallid and Alabama sturgeon under the ESA. To investigate thesequestions, we compared a 436 base-pair sequence of the mitochondrial DNA(mtDNA) control region among the three species. We observed 16 mtDNAhaplotypes defined by 27 single base-pair substitutions (transitions)and one single base-pair insertion/deletion (indel) among 78individuals examined. The maximum sequence divergence among thosehaplotypes (2.06%) was less than values usually observed betweenfish species. However, Alabama sturgeon (n = 3) weredistinguished from the other two taxa (n = 75) by aunique base-pair substitution and haplotype, and pallid and shovelnosesturgeon at their northern range of natural sympatry (upper MissouriRiver) did not share any haplotypes. On the other hand, only frequencydifferences among shared haplotypes distinguished (P < 0.01)pallid and shovelnose sturgeon at their southern range of naturalsympatry (Atchafalaya River), and genetic distances between northern andsouthern localities for each species were nearly as large as thedistances between species. These latter results are consistent withseveral hypotheses, including reports (based on morphology) of putativenatural hybrids in the Atchafalaya River but not in the upper MissouriRiver. Overall, these mtDNA results indicate significant reproductiveisolation between pallid and shovelnose sturgeon in areas of naturalsympatry, and recent evolutionary divergence of Alabama sturgeon. ThesemtDNA results provide the first molecular genetic evidence fordistinguishing the three Scaphirhynchus species and, coupledwith morphological and biogeographic data, indicate that pallid andAlabama sturgeon should be evaluated as distinct species under theESA.     

Functional morphology of prey capture in the sturgeon,Scaphirhynchus albus

Acipenseriformes (sturgeon and paddlefish) are basal actinopterygians with a highly derived cranial morphology that is characterized by an anatomical independence of the jaws from the neurocranium. We examined the morphological and kinematic basis of prey capture in the Acipenseriform fish Scaphirhynchus albus, the pallid sturgeon. Feeding pallid sturgeon were filmed in lateral and ventral views and movement of cranial elements was measured from video sequences. Sturgeon feed by creating an anterior to posterior wave of cranial expansion resulting in prey movement through the mouth. The kinematics of S. albus resemble those of other aquatic vertebrates: maximum hyoid depression follows maximum gape by an average of 15 ms and maximum opercular abduction follows maximum hyoid depression by an average of 57 ms. Neurocranial rotation was not a part of prey capture kinematics in S. albus, but was observed in another sturgeon species, Acipenser medirostris. Acipenseriformes have a novel jaw protrusion mechanism, which converts rostral rotation of the hyomandibula into ventral protrusion of the jaw joint. The relationship between jaw protrusion and jaw opening in sturgeon typically resembles that of elasmobranchs, with peak upper jaw protrusion occurring after peak gape.     

Potential responses of the Lower Missouri River Shovelnose Sturgeon (Scaphirhynchus platorynchus) population to a commercial fishing ban

We developed an age‐structured population matrix model to perform population viability analysis for Lower Missouri River (LMR) shovelnose sturgeon (Scaphirhynchus platorynchus). We investigated potential effects of the commercial fishing moratorium put in place to help protect the similar‐appearing pallid sturgeon (S. albus). The model applies different components of total variance in life history parameters at different levels: sampling variance (parameter uncertainty) between model iterations; temporal variance (temporal environmental fluctuations) between time steps within iterations; and individual variance (individual differences) within each time‐step. The model predicted annual rates of population increase of 1.96% under historic fishing and 2.67% with removal of historic fishing. We identified combinations of fishing and harvest size restrictions that would permit a sustainable harvest of shovelnose sturgeon. Overall, the ban on commercial fishing of shovelnose sturgeon in the LMR due to similarity of appearance to pallid sturgeon should help the LMR shovelnose sturgeon population begin to rebound while decreasing any negative effects it may have had on pallid sturgeon populations.     

Conservation of Atlantic sturgeon <Emphasis Type="Italic">Acipenser oxyrinchus oxyrinchus</Emphasis>: delineation of stock structure and distinct population segments

The anadromous Atlantic sturgeon Acipenser oxyrinchus oxyrinchus, a wide-ranging species along the Atlantic Coast of North America, is being considered for federal listing under the U.S. Endangered Species Act. Identification of distinct population segments (DPS) is necessary but problematic for highly vagile species such as Atlantic sturgeon which may spend a high proportion of their lives outside of their natal estuaries. Characterization of genetic differentiation and estimates of gene flow provide a quantitative measure of the number of DPS into which species could be divided over their distribution and the reproductive independence of each unit. We sequenced a portion of the mitochondrial DNA control region to characterize population structure and gene flow across all naturally reproducing populations from which specimens could be obtained. We then considered these genetic data along with ancillary information on life history characteristics, historical fisheries data, and trajectories of abundance to determine the number of DPS into which this species should be divided. Our results suggest that philopatry is high for Atlantic sturgeon and that each U.S. estuary analyzed hosts genetically distinct populations of Atlantic sturgeon. We conclude that at least nine DPS of Atlantic sturgeon exist along the Atlantic Coast of the U.S. In contrast, the Atlantic Sturgeon Status Review Team has proposed a five DPS scheme for this subspecies based largely on results from nuclear DNA microsatellites, but with fewer populations represented and lower samples sizes. These different conclusions illustrate the somewhat arbitrary nature of the DPS concept, at least as applied to Atlantic sturgeon.