scholarly journals Molecular Characterization of Hemagglutinin-Neuraminidase Protein Virus Newcastle disease (ND) in Surabaya during 2003 and 2016

2021 ◽  
Vol 4 (2) ◽  
pp. 231
Author(s):  
Innah Wulandari ◽  
Jola Rahmahani ◽  
Indah Rahmawati ◽  
Nurvita Putih ◽  
Aisyah Azahro ◽  
...  

This study aimed to determine the mutation of amino acid, nucleotide homology, phylogenetic tree, epitope prediction of Hemagglutinin-Neuraminidase protein Newcastle Disease (ND) Virus isolated from traditional market around Surabaya. Samples were from 37 chicken with cloacal swab and one positive samples for control (LaSota). Samples were inoculated on embyonate chicken eggs and identified with HA test confirmed with HI test. Positive samples processed by PCR using forward and reverse primer with 503 bp RNA target. The PCR result then analyzed with sequencing. Result of sequencing analysis showed that theres similiarity between samples amino acid and vaccine isolate its effect the percentage of nucleotide homology and phylogenetic relation between isolate. Epitope NGAANNSGWGAPIHDPDYIGG have high immunogenic value at all of isolate which good as vaccine candidate.

1995 ◽  
Vol 305 (2) ◽  
pp. 363-366 ◽  
Author(s):  
C Emiliani ◽  
S Martino ◽  
J L Stirling ◽  
B Maras ◽  
A Orlacchio

Human lysosomal alpha-mannosidase has been purified by a simple and rapid method in sufficient quantities for the analysis of its subunit composition and partial protein sequencing. Analysis of the N-terminal residues of the 30 kDa polypeptide has enabled us to confirm the identity of the recently cloned cDNA that was tentatively identified as that of lysosomal alpha-mannosidase [Nebes and Schmidt (1994) Biochem. Biophys. Res. Commun. 200, 239-245] and to locate the position of this polypeptide within the total deduced amino acid sequence. This finding will therefore provide a firm foundation for the characterization of alpha-mannosidosis mutations.


2017 ◽  
Vol 3 (6) ◽  
pp. 316
Author(s):  
Indah Laili Rahmawati ◽  
Fedik Abdul Rantam ◽  
Wiwik Tyasningsih

The aims of this research is to determine pathotype according to composition amino acid cleavage site of F protein, and epitope prediction of F protein from Surabaya isolate. Samples were cloacal swabs of 28 backyard chickens from five wet markets in Surabaya, 9 ND positive isolates from Laboratory of Virology and Immunology Department Microbiology Airlangga University, and also positive LaSota isolates (ATCC). Samples were isolated on the embryonated chicken egg and identified by HA test. The viruses were confirmed as NDV by hemagglutination inhibition assay and RT-PCR with target 687 bp. Prediction of epitope were using online software IEDB. The result of epitope B cell prediction from each isolate showing 11-12 epitope B cell candidates in protein F. Thus, it could be concluded that ND virus which isolated from Surabaya has a chance as immunogen candidate, which can be developed as vaccine candidate. Key words: Newcastle disease, Cleavage site, Fusion protein, Surabaya


Blood ◽  
2010 ◽  
Vol 116 (21) ◽  
pp. 4455-4455
Author(s):  
Xianfeng Zha ◽  
Shaohua Chen ◽  
Lijian Yang ◽  
Bo Li ◽  
Yu Chen ◽  
...  

Abstract Abstract 4455 The clonally expanded T cells identified in most cancer patients which were considered to respond to tumour association antigen (TAA) have definitely specific anti-tumor cytotoxicity. P210BCR-ABL protein regards as the hallmark of CML and known to be causative of the disease, and also expresses in partial acute lymphoblastic leukaemia (ALL) can induce to yield tumor-specific cytotoxic T lymphocytes (CTL) which can kill bar-abl+ tumor cells in many trials. In our previous study, we found the oligoclonal expansion of TCR Vβ21 subfamily in the peripheral blood (PB) of 8 cases with P210BCR-ABL positive CML and 3 cases with P210BCR-ABL positive B-ALL patients and 1 case with P210BCR-ABL negative B-ALL patients using the genescan technology. To further elucidate the oligoclonal TCR Vβ21 features, we carried out sequencing analysis of CDR3 region of each oligoclonal TCR Vβ21 and determined the primary structure of the CDR3 region. The 12 TCR Vβ21 clones used different Jβ segments, Jβ2.3 segment was used in 4 clones, both Jβ2.1 and Jβ1.1 segments were used in 2 clones respectively, Jβ1.2, Jβ1.3, Jβ2.2 and Jβ2.7 segments were used in 1 clone. Only a conserved amino acid motif (SLxxV) was found within the CDR3 region from 3 patients with CML. Then we constructed the three-dimensional structures of the CDR3 sequences from all 12 clones by homology modeling methods and through pairwise comparing with the three-dimensional structures of all CDR3 sequences, the results showed that the conformation of the CDR3 region either containing the conserved amino acid motif or using the same Jβ segment displayed low similarity. Interesting, the conformation among some clones whose CDR3 region contain different amino acid motif and did not use the same Jβ segment were high resemble. In conclusions, our findings described that the high frequency of TCR Vβ21 subfamily expansion emerged in p210BCR-ABL positive CML and B-ALL patients, and according to perplexing features of CDR3 region, it could not easy to confirmed that the oligoclonal expanded TCR Vβ21 subfamily must recognize to p210BCR-ABL protein, however, primary structure characterization of CDR3 region, in combination with spatial structure features, ultimately might help to identify the tumor-associated antigen immune attack on tumor cell in p210BCR-ABL positive CML or B-ALL patients. Disclosures: Li: The study was supported by grants from National “863” project (No. 2006AA02Z114) and Key project of Natural Science Foundation of Guangdong province, China (No. 05103293, 9251063201000001).: Research Funding.


2020 ◽  
Author(s):  
Jing Wang ◽  
Miao Jin ◽  
Hailong Zhang ◽  
Yanan Zhu ◽  
Hong Yang ◽  
...  

Abstract Background Norovirus (NoV) is the main cause of non-bacterial acute gastroenteritis (AGE) outbreaks worldwide. From September 2015 through August 2018, 203 NoV outbreaks with 2,500 patients were reported to the Shenzhen Center for Disease Control and Prevention. Methods Fecal specimens were collected from the 203 outbreaks and epidemiological data were collected through the AGE outbreak surveillance system in Shenzhen. The genotypes were determined by sequencing analysis. To gain a better understanding of evolutionary characterization of NoV in Shenzhen, the molecular evolution was analyzed by time-scale evolutionary phylogeny and amino acid mutations. Results Most of these outbreaks were associated with NoV GII.P16/GII.2 strain (45.3%,92/203) and occurred in school settings (91.6%,186/203). The timescale phylogeny suggested that the GII.P16/GII.2 strain was recombination strain and were still stable. The amino acid mutations suggested that the nonstructural proteins of the recombination strain might play a more significant role than VP1 gene in these GII.P16/GII.2 recombination strain outbreaks. Conclusions This study illustrated the characteristics of the molecular epidemiological patterns in Shenzhen, China during September 2015 to August 2018 and provided the evidence that the GII.P16/GII.2 strain was static and the epidemic trend had fade.


2006 ◽  
Vol 87 (2) ◽  
pp. 387-394 ◽  
Author(s):  
Yang Li ◽  
Li Tan ◽  
Yanqiu Li ◽  
Wuguo Chen ◽  
Jiamin Zhang ◽  
...  

Genomic characterization of Heliothis armigera cypovirus (HaCPV) isolated from China showed that insects were co-infected with several cypoviruses (CPVs). One of the CPVs (HaCPV-5) could be separated from the others by changing the rearing conditions of the Heliothis armigera larvae. This finding was further confirmed by nucleotide sequencing analysis. Genomic sequences of segments S10–S7 from HaCPV-14, S10 and S7 from HaCPV-5, and S10 from Heliothis assulta CPV-14 were compared. Results from database searches showed that the nucleotide sequences and deduced amino acid sequences of the newly identified CPVs had high levels of identity with those of reported CPVs of the same type, but not with CPVs of different types. Putative amino acid sequences of HaCPV-5 S7 were similar to that of the protein from Rice ragged stunt virus (genus Oryzavirus, family Reoviridae), suggesting that CPVs and oryzaviruses are related more closely than other genera of the family Reoviridae. Conserved motifs were also identified at the ends of each RNA segment of the same virus type: type 14, 5′-AGAAUUU…CAGCU-3′; and type 5, 5′-AGUU…UUGC-3′. Our results are consistent with classification of CPV types based on the electrophoretic patterns of CPV double-stranded RNA.


1973 ◽  
Vol 74 (2) ◽  
pp. 226-236 ◽  
Author(s):  
Michel Chrétien ◽  
Claude Gilardeau

ABSTRACT A protein isolated from ovine pituitary glands has been purified, and its homogeneity assessed by NH2- and COOH-terminal amino acid determination, ultracentrifugation studies, and polyacrylamide gel electrophoresis after carboxymethylation. Its chemical and immunochemical properties are closely similar to those of beef and pork neurophysins, less similar to those of human neurophysins. It contains no tryptophan (like other neurophysins) or histidine (like all except bovine neurophysin-I and human neurophysins). It has alanine at the NH2-terminus and valine at the COOH-terminus. Its amino acid composition is similar to, but not identical with those of porcine and bovine neurophysins.


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