Evaluation of candidate gene effects and environmental factors on reproductive performance of Holstein cows
SOUTH AFRICAN JOURNAL OF ANIMAL SCIENCE
Authors: Ardicli, S.; Samli, H.; Soyudal, B.; Dincel, D.; Balci, F.
Abstract
This study investigated the impact of nine polymorphisms located in the CSN2, CSN3, CSN1S1, CSN1S2, and parity on reproductive traits. The analysis was conducted on 165 Holstein-Friesian cows. Genotypes were identified using PCR-RFLP. The data of reproductive traits for four lactations were evaluated. Statistical analysis was carried out using least squares of the GLM procedures. Results indicated that CSN2 had significant effects on days before first insemination and first insemination to pregnancy interval. The SNP at the CSN3 was significantly associated with gestation length. A novel effect of OLR1-C223A on age at first calving was observed in the present study. Moreover, DGAT1 and LGB markers were significantly associated with calving interval and days before first insemination, respectively. In addition, significant environmental effects were as follows: calving year with days before first oestrus, days open, and first insemination to pregnancy interval; season with days open, first insemination to pregnancy interval, and calving interval; parity with days before first oestrus and days open. The present results and novel associations may therefore be useful and indicative for future studies on a genetic basis of cattle reproduction traits.
RNA-Seq analysis of peripheral blood mononuclear cells reveals unique transcriptional signatures associated with radiotherapy response of nasopharyngeal carcinoma and prognosis of head and neck cancer
CANCER BIOLOGY & THERAPY
Authors: Liu, Guohong; Zeng, Xiaojiao; Wu, Balu; Zhao, Jin; Pan, Yunbao
Abstract
Radiotherapy is the main treatment for nasopharyngeal carcinoma (NPC); however, radioresistance limits the therapeutic efficacy and prognosis of patients with NPC. Here, we plan to identify the genes involved in radiotherapy response. Peripheral blood mononuclear cells (PBMC) from three paired NPC patients with pre-radiotherapy and post-radiotherapy were extracted. Next-generation deep sequencing was then performed to identify the PBMCs transcripts profiles in response to radiotherapy. Data of gene chip GSE48501 was obtained from Gene Expression Omnibus (GEO) database. The gene integration of differentially expressed genes identified from RNA-Seq data and gene chip was performed using "RobustRankAggreg" package. RNA-Seq data from 44 normal and 519 Head and neck squamous cell carcinoma (HNSCC) tissues (downloaded from TCGA) was integrated into the analysis to further support our study. Cox regression was used to identify risk factors impacting survival. Total of 45 genes were identified to be associated with radiotherapy response. Significantly enriched Gene Ontology (GO) terms and pathways were enriched. Univariate and multivariate analysis suggested the dysregulated genes, CHAC2, CLEC9A, GNG10, JCHAIN, KLRB1, NOG, OLR1, PRELID2, SYT1, VWCE, ZNF443 were associated with survival in HNSCC patients. Our data provide an overview of the profiles of radiotherapy-associated genes, which will facilitate future investigations into the function of radiotherapy resistance.