J亚群禽白血病病毒蛋鸡分离株SD07LK1全基因组核苷酸序列的比较

[目的]分析我国ALV-J蛋鸡分离株的来源和进一步演变趋势.[方法]以J亚群禽白血病病毒(ALV-J)蛋鸡分离株SD07LK1感染的鸡胚成纤维细胞(CEF)基因组:DNA作为其前病毒基因组模板,根据已发表序列设计合成9对引物,经PCR扩增出9段连续的、相互部分重叠的DNA片段和闭合环形前病毒两末端LTR的连接区段,并分别连入T载体进行克隆、测序.[结果]用:DNAstar软件对测序结果进行剪辑和拼接,首次完成了ALV-J蛋鸡分离株SD07LK1的前病毒全基因组核苷酸序列.[结论]将该序列与另外已完成的全基因组序列的比较表明,ALV-J的整个基因组gag和pol基因相对保守,各毒株间对应基因的同源性分别在95.O%以上,env基因的同源性仅为88.6%～94.0%.     

J亚群禽白血病病毒蛋鸡分离株SD07LK1全基因组核苷酸序列的比较分析

[目的]分析我国ALV-J蛋鸡分离株的来源和进一步演变趋势.[方法]以J亚群禽白血病病毒(ALV-J)蛋鸡分离株SD07LK1感染的鸡胚成纤维细胞(CEF)基因组:DNA作为其前病毒基因组模板,根据已发表序列设计合成9对引物,经PCR扩增出9段连续的、相互部分重叠的DNA片段和闭合环形前病毒两末端LTR的连接区段,并分别连入T载体进行克隆、测序.[结果]用:DNAstar软件对测序结果进行剪辑和拼接,首次完成了ALV-J蛋鸡分离株SD07LK1的前病毒全基因组核苷酸序列.[结论]将该序列与另外已完成的全基因组序列的比较表明,ALV-J的整个基因组gag和pol基因相对保守,各毒株间对应基因的同源性分别在95.O%以上,env基因的同源性仅为88.6%～94.0%.     

绵羊肺腺瘤病毒NM株前病毒基因组的克隆与全序列分析

本研究参照GenBank中已发表的绵羊肺腺瘤病毒的基因组全序列,设计合成8对引物,从内蒙古某羊场自然感染绵羊肺腺瘤病的病肺肿瘤组织中提取总DNA为模板,对JSRV-NM株基因组分8段进行PCR扩增,产物分别为8个(531bp,888bp,949bp,944bp,1428bp,947bp,1836bp,538bp)基因片段,将其分别克隆入pMD-18T载体中进行双向测序并拼接序列,获得完整的JSRV-NM株前病毒基因组全序列。结果表明,JSRV-NM株前病毒基因组全长7430bp,有相互重叠的4个较长的开放阅读框(ORF),分别代表gag、pro、pol和env基因。与绵羊肺腺瘤病毒Ⅰ型即南非代表株(NC-001494)和绵羊肺腺瘤病毒Ⅱ型即美国代表株(AF105220)的核苷酸同源性比较分别为90.4%和90%,推导出的氨基酸同源性分别为90%和89.1%。分析JSRV-NM株基因组结构,发现在LTR的上游和下游都具有外源性exJSRV特有的ScaⅠ酶切位点,在gag基因编码的NC区发现有2个较典型的“胱氨酸—组氨酸序列”,可形成锌指结构。在env基因编码的TM区有特异性的“YXXM”基序。用地高辛标记外源性exJSRV特异的JSRV-2片段制成探针,原位杂交法检测自然感染绵羊肺腺瘤病(OPA)的病肺组织中JSRV-NM的RNA及前病毒DNA,结果表明OPA患羊肺肿瘤细胞的胞浆和核内都有JSRV-2基因mRNA的表达,说明JSRV-NM株是具有致瘤作用的外源性反转录病毒。这是我国首次报道的绵羊肺腺瘤病毒的基因组全序列。     

绵羊肺腺瘤病毒NM株前病毒基因组的克隆与全序列分析

本研究参照GenBank中已发表的绵羊肺腺瘤病毒的基因组全序列,设计合成8对引物,从内蒙古某羊场自然感染绵羊肺腺瘤病的病肺肿瘤组织中提取总DNA为模板,对JSRV-NM株基因组分8段进行PCR扩增,产物分别为8个(531bp, 888bp, 949 bp, 944bp, 1428bp, 947bp, 1836bp, 538bp)基因片段,将其分别克隆入pMD-18 T载体中进行双向测序并拼接序列,获得完整的JSRV-NM株前病毒基因组全序列.结果表明,JSRV-NM株前病毒基因组全长7430bp,有相互重叠的4个较长的开放阅读框(ORF),分别代表gag、 pro、 pol 和 env基因.与绵羊肺腺瘤病毒Ⅰ型即南非代表株(NC-001494)和绵羊肺腺瘤病毒Ⅱ型即美国代表株(AF105220)的核苷酸同源性比较分别为90.4%和90%,推导出的氨基酸同源性分别为90%和89.1%.分析JSRV-NM株基因组结构,发现在LTR的上游和下游都具有外源性exJSRV特有的ScaⅠ酶切位点,在gag基因编码的NC区发现有2个较典型的"胱氨酸-组氨酸序列",可形成锌指结构.在env基因编码的TM区有特异性的"YXXM"基序.用地高辛标记外源性exJSRV特异的JSRV-2片段制成探针,原位杂交法检测自然感染绵羊肺腺瘤病(OPA)的病肺组织中JSRV-NM的 RNA及前病毒DNA,结果表明OPA患羊肺肿瘤细胞的胞浆和核内都有JSRV-2基因mRNA的表达, 说明JSRV-NM株是具有致瘤作用的外源性反转录病毒.这是我国首次报道的绵羊肺腺瘤病毒的基因组全序列.     

二株B亚群禽白血病病毒全基因组序列及其在细胞上的复制性比较

本研究比较了从山东地方品系鸡群分离到的二株B亚型禽白血病病毒(ALV)SDAU09E3和SDAU09C2的全基因组序列及它们在细胞培养上的复制动态。这二株ALV-B的同源性为95.4%,与GenBank中3株B亚群参考株之间的同源性也均在91.0%～94.9%间,而与其它亚群参考株的同源性均低于87.9%。与亚群无关的gag、pol基因和LTR的核苷酸序列比较表明,这二株ALV-Bgp85基因的gag和pol基因与所有比较的参考株的同源性均在93%以上。LTR与其他外源性ALV参考株的LTR间的同源性在72.6%～88.3%范围内,但与E亚群内源性ALV的LTR的同源性只有51.5%。然而,这二个ALV-B的LTR的同源性也只有74.8%,远低于其他基因组部分的同源性,特别是它们的LTR的U3区同源性只有68.8%,二者在二个CAAT分布上也显著不同。对这二株ALV-B在DF-1细胞上的复制动态比较表明,它们在细胞培养上清液中的TCID50值非常类似,但SDAU09E3株核衣壳蛋白p27抗原的含量显著高于SDAU09C2株。这表明,同一亚群的不同毒株在复制过程中,所表达的p27抗原量与所形成的具有传染性的病毒量间没有平行关系。这一差异与LTR-U3区的相关性则有待应用感染性克隆技术来做进一步深入研究。     

蛋鸡J亚群禽白血病的分子生物学诊断

根据J亚群白血病病毒(ALV-J)原型株HPRS-103的序列设计了一对针对外源性ALV-J引物H5和H7,从发生ML病死鸡的肿瘤、骨髓、肝脏、脾脏和输卵管组织中提取DNA作为模板,经PCR扩增得到长度为545bp的片段,对其序列进行测定后,与ALV-J原型株HPRS-103的序列进行了比较,发现其核苷酸同源性为97．4％,所编码氨基酸的同源性为96．1％。该片段含有ALV-J gp85编码基因的部分序列和ALV-J pol基因的部分序列,从分子水平上证实了蛋鸡发生J亚群禽白血病,进一步证明了此前根据病理学观察、免疫组化及免疫荧光诊断的结果。这是首次从分子水平上证明蛋用型鸡发生J亚群禽白血病。     

网状内皮组织增生症病毒中国分离株HA9901全基因组核苷酸序列的测定与分析

以网状内皮组织增生症病毒(REV)中国分离株HA9901感染的鸡胚成纤维细胞(CEF)基因组DNA作为其前病毒基因组模板, 根据已发表序列设计合成6对引物, 经PCR扩增出6段连续的、相互部分重叠的DNA片段和闭合环形前病毒两末端LTR的连接区段, 并分别连入T载体进行克隆、测序. 用DNAstar软件对测序结果进行剪辑和拼接, 完成了REV第一个中国分离株HA9901前病毒全基因组核苷酸序列. 在从截然不同的地区、不同年份、不同禽类分离到的毒株中, 将该序列与另两个毒株已完成的全基因组序列的比较表明, REV的整个基因组相对保守, 各毒株间对应基因的同源性都在92%以上. 其中, 从我国鸡体分离到的野毒株HA9901与美国鸡源分离株FA在整个基因组上的同源性均显著高于美国的鸭源SNV株.     

略阳乌鸡内源性逆转录病毒鉴定及表达分析

内源性禽白血病病毒等以多种逆转录病毒基因组稳定存在鸡染色体中,其致病性低或无致病性,但是内源性病毒的基因表达降低了鸡抵抗外源病毒感染的能力。本研究以略阳乌鸡为研究对象,利用多重PCR鉴定鸡基因组中禽内源性病毒EAV-HP和禽白血病病毒E亚群(ALV-E),分析ALV-E的env基因表达情况。结果表明,30只略阳乌鸡的基因组中均携带EAV-HP病毒序列,其中28只携带ALV-E序列。通过MEGA和NETWORK软件对ALV-E的gp85基因分析表明,略阳乌鸡与江苏绿壳蛋鸡聚在同一分支,两者同源性高达99.1%。此研究也为后续略阳乌鸡遗传背景分析和选育抗病毒感染优良品种提供基础数据。     

鸡内源性类J亚群禽白血病病毒gp85基因的克隆及分析

为深入探讨J亚群禽白血病病毒(Avian leukosis virus subgroup J,ALV-J)的亚群特性,利用ALV-J gp85基因两侧的序列片段为引物,从正常SPF蛋鸡、商品肉鸡和DF1细胞基因组中完整地扩增了内源性类ALV-J gp85基因。肉鸡和DF1细胞内源性类ALV-J gp85基因同源性达99．9％;SPF蛋鸡内源性类ALV-J gp85基因与肉鸡和DF1细胞的内源性类ALV-J gp85基因之间同源性达95．6％、95．3％。三种不同来源的内源性类ALV-J gp85基因DNA与IMC10200株ALV-J的gp85基因的同源性分别为91．8％、94．1％、94．0％;与ALV-J原型株HPRS-103gp85基因的同源性分别为95．6％、98．3％、99．9％。内源性类ALV-J gp85序列与外源性ALV-J gp85基因具有相似或一致的ORF和Jameson-Worrlf抗原表位优势。     

牛泡沫病毒两类启动子活性的比较和机制探讨

牛泡沫病毒(Bovine foamy virus, BFV)属反转录病毒科泡沫病毒属.其基因组两端为长末端重复序列(Long terminal repeat, LTR),中间部分除gag、pol、env三个结构基因外,还有两个重叠的读码框ORF-1、2,起始于env基因3′端,终止于3′LTR,编码Borf-1、Borf - 2等多种调节蛋白[1～3].     

芦花鸡中B亚群禽白血病病毒的分离与鉴定

通过接种DF-1细胞(C/E)系,从山东某地方品系芦花鸡的鸡群中分离到一株外源性白血病病毒(ALV)SDAU09C2。与GenBank中已发表的不同亚群鸡ALV参考株的囊膜蛋白gp85的氨基酸序列比较,表明该分离株与B亚群ALV(ALV-B)2个参考株的gp85的氨基酸同源性最高,均为92.5%;与A、C、D、E亚群ALV的gp85的氨基酸同源性仅在73.2%~87.9%之间;而与J亚群gp85的氨基酸同源性更低至30.3%~32.4%。这是我国地方品系鸡群中第一次分离和鉴定ALV-B及其gp85基因的报道。     

鸡的J亚群白血病病毒的分离及部分序列比较

通过接种鸡胚成纤维细胞、聚合酶链式反应（ＰＣＲ）技术及特异性单抗的间接荧光抗体反应（ＩＦＡ）,从某大型肉用型种鸡场的疑似Ｊ亚群白血病的病鸡中,以及２５个临床健康的商品代肉鸡群的２群中,分离鉴定出Ｊ亚群禽白血病病毒（ＡＬＶ－Ｊ）。在用抗ＡＬＶ－Ｊ ｇｐ８５单克隆抗体ＪＥ９的ＩＦＡ中,来自病鸡群的两株病毒ＳＤ９９０１和ＳＤ９９０２呈强阳性反应,来自临床健康肉鸡群的ＹＺ９９０１和ＹＺ９９０２株呈弱阳性反     

Effect of intron size on splicing efficiency in retroviral transcripts

To study the effect of intron size on splicing efficiency we have varied the size of the avian leukosis virus (ALV) env mRNA intron in a cloned ALV genome. This was accomplished by deletion of ALV sequences or insertion of phage lambda DNA. The effect of these modifications on splicing was analyzed by microinjection of the modified clones into RSV(-) chicken cells. Viral env mRNA when transcribed and properly spliced within these cells complemented the RSV(-) env deficiency leading to the production of focus forming units. Using this assay it was shown that deletion of up to 3.7 kb of the 4.68 kb env intron did not inhibit correct splicing nor did insertion of up to 8 kb of phage lambda DNA prevent splicing. Our results indicate that intron size can be varied over a wide range without preventing splicing.     

Genome structure and expression of the ev/J family of avian endogenous viruses.

We recently reported the identification of sequences in the chicken genome that show over 95% identity to the novel envelope gene of the subgroup J avian leukosis virus (S. J. Benson, B. L. Ruis, A. M. Fadly, and K. F. Conklin, J. Virol. 72:10157-10164, 1998). Based on the fact that the endogenous subgroup J-related env genes were associated with long terminal repeats (LTRs), we concluded that these LTR-env sequences defined a new family of avian endogenous viruses that we designated the ev/J family. In this report, we have further characterized the content and expression of the ev/J proviruses. The data obtained indicate that there are between 6 and 11 copies of ev/J proviruses in all chicken cells examined and that these proviruses fall into six classes. Of the 18 proviruses examined, all share a high degree of sequence identity and all contain an internal deletion that removes all of the pol gene and various amounts of gag and env gene sequences. Sequencing of the gag genes, LTRs, and untranslated regions of several ev/J proviruses revealed a high level of identity between isolates, indicating that they have not undergone significant sequence variation since their introduction into the avian germ line. Although the ev/J gag gene showed a relatively weak relationship (46% identity and 61% similarity at the amino acid level) to that of the avian leukosis-sarcoma virus family, it retains several sequences of demonstrated importance for virus assembly, budding, and/or infectivity. Finally, evidence was obtained that at least some members of the ev/J family are expressed and, if translated, could encode Gag- and Env-related polypeptides.     

Molecular characterization and phylogenetic analyses of a new, highly divergent simian T-cell lymphotropic virus type 1 (STLV-1marc1) in Macaca arctoides.

A serological survey of a captive colony of Asian monkeys indicated that six Macaca arctoides had antibodies to human T-cell leukemia/lymphotropic viruses (HTLV). Over a 4-year interval, sera from these animals continued to exhibit a peculiar Western blot (WB) pattern resembling an HTLV-2 pattern (p24gag reactivity of equal or greater intensity than that of p19gag and a strong reactivity to recombinant gp21) but also exhibiting, in five of six cases, a reactivity against MTA-1, an HTLV-1 gp46 peptide. PCR experiments on DNA extracted from peripheral blood mononuclear cells using HTLV-1- or HTLV-2-specific long terminal repeat, gag, pol, env, and tax primers yielded negative results. However, highly conserved primers successfully amplified three different gene segments of env, tax, and env-tax. The results of comparative sequence analysis demonstrated that STLV-1marc1 was not closely related to any known STLV-1 strain, was the most divergent strain of the HTLV-1-STLV-1 group, and lacked the ATG initiation codons corresponding to the p12 and p13 proteins of HTLV-1. Phylogenetic analyses incorporating representative strains of all known HTLV-STLV clades consistently depicted STLV-1marc1 within the HTLV-1-STLV-1 type 1 lineage, but it probably diverged early, since its position is clearly different from all known viral strains of this group and it had a bootstrap resampling value of 100%. Genetic distance estimates between STLV-1marc1 and all other type 1 viruses were of the same order of magnitude as those between STLV-2PanP and all other type 2 viruses. In light of the recent demonstration of interspecies transmission of some STLV-1 strains, our results suggest the existence in Asia of HTLV-1 strains related to this new divergent STLV-1marc1 strain, which may be derived from a common ancestor early in the evolution of the type 1 viruses and could be therefore considered a prototype of a new HTLV-STLV clade.     

Nucleotide sequence analysis establishes the role of endogenous murine leukemia virus DNA segments in formation of recombinant mink cell focus-forming murine leukemia viruses.

The sequence of 363 nucleotides near the 3' end of the pol gene and 564 nucleotides from the 5' terminus of the env gene in an endogenous murine leukemia viral (MuLV) DNA segment, cloned from AKR/J mouse DNA and designated as A-12, was obtained. For comparison, the nucleotide sequence in an analogous portion of AKR mink cell focus-forming (MCF) 247 MuLV provirus was also determined. Sequence features unique to MCF247 MuLV DNA in the 3' pol and 5' env regions were identified by comparison with nucleotide sequences in analogous regions of NFS -Th-1 xenotropic and AKR ecotropic MuLV proviruses. These included (i) an insertion of 12 base pairs encoding four amino acids located 60 base pairs from the 3' terminus of the pol gene and immediately preceding the env gene, (ii) the deletion of 12 base pairs (encoding four amino acids) and the insertion of 3 base pairs (encoding one amino acid) in the 5' portion of the env gene, and (iii) single base substitutions resulting in 2 MCF247 -specific amino acids in the 3' pol and 23 in the 5' env regions. Nucleotide sequence comparison involving the 3' pol and 5' env regions of AKR MCF247 , NFS xenotropic, and AKR ecotropic MuLV proviruses with the cloned endogenous MuLV DNA indicated that MCF247 proviral DNA sequences were conserved in the cloned endogenous MuLV proviral segment. In fact, total nucleotide sequence identity existed between the endogenous MuLV DNA and the MCF247 MuLV provirus in the 3' portion of the pol gene. In the 5' env region, only 4 of 564 nucleotides were different, resulting in three amino acid changes between AKR MCF247 MuLV DNA and the endogenous MuLV DNA present in clone A-12. In addition, nucleotide sequence comparison indicated that Moloney-and Friend-MCF MuLVs were also highly related in the 3' pol and 5' env regions to the cloned endogenous MuLV DNA. These results establish the role of endogenous MuLV DNA segments in generation of recombinant MCF viruses.