Papers by Javad Rahmaninia
Genome wide distribution of XP-EHH from Azeri and Khuzestani buffalo breed values. (TXT 2963Â kb)
Genome wide distribution of iHS from Khuzestani buffalo breed values. (TXT 2864Â kb)
Genome wide distribution of iHS from Azeri buffalo breed values. (TXT 2913Â kb)
Genome wide distribution of iHS and XP-EHH plot. (PDF 349Â kb)
Adjecent r2 information. (XLS 67Â kb)
Haploview LD graph for selected regions. (PDF 904Â kb)
HeatMap of studied Iranian Azeri and Khuzestani buffalo breeds. (PDF 235Â kb)
Genomic matrix of studied Iranian Azeri and Khuzestani buffalo breeds. (XLS 1750Â kb)
Least-square means and standard deviations of some morphometric and body size traits in Iranian A... more Least-square means and standard deviations of some morphometric and body size traits in Iranian Azeri and Khuzestani water buffalo breeds. (DOCX 19Â kb)
Windowed FST output file. (XLS 6816Â kb)
FST output file. (XLS 9242Â kb)
Map file after QC. (TXT 1809Â kb)
Genes included in selected regions (Biomart input & output). (XLS 105Â kb)
Buffalo Bulletin, 2019
In order to evaluate and compare the properties of type traits in Khuzestani and Azeri river buff... more In order to evaluate and compare the properties of type traits in Khuzestani and Azeri river buffaloes, 148 and 336 Khuzestani and Azeri buffaloes were used, respectively. Animals were evaluated for traits such as Height at Withers, Body depth, Body length, Heart girth, Hip width, Pin width and Hip to Pin length. The averages for these traits in Khuzestani breed were 145.2±6.63, 78.27±5.43, 140.5±10.05, 208.87±13.75, 57±4.44, 25.29±3.03 and 44±2.97 cm and in Azeri breed were 138.93±6.39, 76.4±5.61, 136.22±10.05, 184±13.66, 54.96±4.85, 26.43±3.94 and 43.8±3.44 cm, respectively. The effect of breed on height at withers, heart girth and hip width was quite significant (P<0.001) and values for these traits in Khuzestani breed was higher than Azeri. The effect of parity number for all studied traits was significant (P<0.001), except for the heart girth. Heifers had the lowest values among different age groups and differences in this group increased with increasing age and parity. A...
Research on Animal Production
The reliability and performance of the molecular diagnostic assays such as polymerase chain react... more The reliability and performance of the molecular diagnostic assays such as polymerase chain reaction (PCR), enzyme digestion and other applications are influence by quantity and quality of the extracted DNA strongly. Furthermore, to choose suitable and optimal tissue for genomic experiments nevertheless consider quantity and quality of the extracted DNA, we need to consider the comfort of sample collecting, transporting costs, storing costs, safety of sampling and pre-processing. I this study an efficient salting out-modified procedure for extracting DNA from hair roots, introduced. This procedure yield high quantity of DNA with adequate quality. Four hundred Hair roots and blood samples were obtained from buffalo units experiment. The yield of extracted DNA and the purity of the DNA samples were evaluated by absorbance (A2260/A280) ratio. 1% agar gel electrophoresis and PCR amplification. Mean DNA yields and the 260/280 nm absorbance ratio for buffalo hair roots and blood were 27.67 μg and 1.85 and 17.86 μg and 1.83, respectively. Comparing this results with previous studies demonstrate that our modified procedure is cost-effectiveness, comfortable, safe, efficient and recommendable procedure to carry out in biotechnology laboratories.
The reliability and performance of the molecular diagnostic assays such as polymerase chain react... more The reliability and performance of the molecular diagnostic assays such as polymerase chain reaction (PCR), enzyme digestion and other applications are influence by quantity and quality of the extracted DNA strongly. Furthermore, to choose suitable and optimal tissue for genomic experiments nevertheless consider quantity and quality of the extracted DNA, we need to consider the comfort of sample collecting, transporting costs, storing costs, safety of sampling and pre-processing. I this study an efficient salting out-modified procedure for extracting DNA from hair roots, introduced. This procedure yield high quantity of DNA with adequate quality. Four hundred Hair roots and blood samples were obtained from buffalo units experiment. The yield of extracted DNA and the purity of the DNA samples were evaluated by absorbance (A2260/A280) ratio. 1% agar gel electrophoresis and PCR amplification. Mean DNA yields and the 260/280 nm absorbance ratio for buffalo hair roots and blood were 27.6...
The reliability and performance of the molecular diagnostic assays such as polymerase chain react... more The reliability and performance of the molecular diagnostic assays such as polymerase chain reaction (PCR), enzyme digestion and other applications are influence by quantity and quality of the extracted DNA strongly. Furthermore, to choose suitable and optimal tissue for genomic experiments nevertheless consider quantity and quality of the extracted DNA, we need to consider the comfort of sample collecting, transporting costs, storing costs, safety of sampling and pre-processing. I this study an efficient salting out-modified procedure for extracting DNA from hair roots, introduced. This procedure yield high quantity of DNA with adequate quality. Four hundred Hair roots and blood samples were obtained from buffalo units experiment. The yield of extracted DNA and the purity of the DNA samples were evaluated by absorbance (A2260/A280) ratio. 1% agar gel electrophoresis and PCR amplification. Mean DNA yields and the 260/280 nm absorbance ratio for buffalo hair roots and blood were 27.6...
BMC genomics, Jan 11, 2018
Identification of genomic regions that have been targets of selection may shed light on the genet... more Identification of genomic regions that have been targets of selection may shed light on the genetic history of livestock populations and help to identify variation controlling commercially important phenotypes. The Azeri and Kuzestani buffalos are the most common indigenous Iranian breeds which have been subjected to divergent selection and are well adapted to completely different regions. Examining the genetic structure of these populations may identify genomic regions associated with adaptation to the different environments and production goals. A set of 385 water buffalo samples from Azeri (N = 262) and Khuzestani (N = 123) breeds were genotyped using the Axiom® Buffalo Genotyping 90 K Array. The unbiased fixation index method (F) was used to detect signatures of selection. In total, 13 regions with outlier F values (0.1%) were identified. Annotation of these regions using the UMD3.1 Bos taurus Genome Assembly was performed to find putative candidate genes and QTLs within the sel...
Uploads
Papers by Javad Rahmaninia