High p53 and MAP1 light chain 3A co-expression predicts poor prognosis in patients with esophageal squamous cell carcinoma.

p53 and microtubule-associated protein 1 light chain 3A (LC3A) are regulators of apoptosis and autophagy and are expressed at high levels in a number of human tumors. The purpose of the current study was to evaluate the clinicopathological and prognostic significance of p53 and LC3A expression levels in esophageal squamous cell carcinomas (ESCCs). p53 and LC3A expression levels were measured by immunohistochemistry in 114 patients with stage II/III (Tany N+M0 or T3,4 Nany M0) ESCCs treated with surgery followed by adjuvant concurrent chemoradiotherapy. The overexpression of p53 and LC3A was observed in 57 and 54% of ESCC samples, respectively. p53 staining was nuclear and LC3A was localized to the cytoplasm of tumor cells. p53 overexpression was more frequently observed in ESCCs with positive lymph nodes (P=0.017). Patients with ESCCs overexpressing p53 and LC3A were associated with a lower 5­year overall survival rate than those with low p53 and LC3A expression (18.0 vs. 54.4%; P=0.001). Univariate and multivariate analyses revealed that the overexpression of p53 or LC3A was not associated with poor patient outcome (P>0.05). However, patients with high levels of p53 and LC3A co-expression had poor clinical prognoses (P=0.027). Thus, p53 and LC3A co-expression is an independent prognostic marker for patients with ESCC.

[Gene prediction and function research of SARS-CoV(BJ01)].

Through reading the articles, this study points out the shortage of gene prediction and function research about SARS-CoV, and predict it again for developing effective drugs and future vaccines. Using twelve gene prediction methods to predict coronavirus known genes, we select four better methods including Heuristic models, Gene Identification, ZCURVE_CoV and ORF FINDER to predict SARS-CoV(BJ01), and use ATGpr for analyzing probability of initiation codon and Kozak rule, search transcription regulating sequence(TRS) in order to improve the accuracy of predicted genes. Twenty-one probable new genes with more than 50 amino acids have been obtained excluding 13 ORFs which are similar to the genes of NCBI and relative articles. For predicted proteins, we use ProtParam to analyse physical and chemical features; SignalP to analyse signal peptide; BLAST, FASTA to search similar sequences; TMPred, TMHMM, PFAM and HMMTOP to analyse domain and motif in order to improve reliability of gene function prediction. At the same time, we separate the 21 ORFs into four classes using codition of four gene prediction methods, match score, match expection and match length between predicted gene and Coronavirus known gene. In the end, we discuss the results and analyse the reasons.

[The genome comparison of SARS-CoV and other coronaviruses].

The genome comparison of inter-species and intra-species can give us much information about the origin and evolution of viruses. There are 137 mutation sites in the 17 genomes of SARS-CoV,and the mutation rate is about 8.04 x 10(-3) substitution/site/year. The distribution of the segregating sites is not steady,the most variable region appears in S1 protein,and the nucleotide sequence of RNA-dependent RNA polymerase has very few mutation sites. The substitution bias of nucleotide acids and amino acids indicates the non-random drift products. The comparison of genome structures of SARS-CoV and other coronaviruses shows that SARS-CoV and IBV share the same genome structure. Phylogenetic analyses of conserved genes of coronaviruses indicate that SARS-CoV is a new branch of coronaviruses and appears more close to the group II coronaviruses. Interestingly,SARS-CoV shares some different features with different groups of coronaviruses. Additional analyses show that the first ORFs between S and E genes of some coronaviruses are transmembrane proteins and share the common motif,indicating the possible common ancestor. From the host distribution of different groups of coronaviruses and the phylogeny of s2m,we can deduce that avian is the probable natural host of SARS-CoV.