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Anand Agricultural University, Anand

Anand Agricultural University (AAU) was established in 2004 at Anand with the support of the Government of Gujarat, Act No.(Guj 5 of 2004) dated April 29, 2004. Caved out of the erstwhile Gujarat Agricultural University (GAU), the dream institution of Sardar Vallabhbhai Patel and Dr. K. M. Munshi, the AAU was set up to provide support to the farming community in three facets namely education, research and extension activities in Agriculture, Horticulture Engineering, product Processing and Home Science. At present there seven Colleges, seventeen Research Centers and six Extension Education Institute working in nine districts of Gujarat namely Ahmedabad, Anand, Dahod, Kheda, Panchmahal, Vadodara, Mahisagar, Botad and Chhotaudepur AAU's activities have expanded to span newer commodity sectors such as soil health card, bio-diesel, medicinal plants apart from the mandatory ones like rice, maize, tobacco, vegetable crops, fruit crops, forage crops, animal breeding, nutrition and dairy products etc. the core of AAU's operating philosophy however, continues to create the partnership between the rural people and committed academic as the basic for sustainable rural development. In pursuing its various programmes AAU's overall mission is to promote sustainable growth and economic independence in rural society. AAU aims to do this through education, research and extension education. Thus, AAU works towards the empowerment of the farmers.

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2009 - 200912010 - 20192
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Subject: Animal Genetics and Breeding × Start date: 2008 × Thesis Type: Ph.D ×
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Now showing 1 - 3 of 3
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    ThesisItemOpen Access
    COMPARISON OF BREEDING VALUES OF PROGENY TESTED SIRES WITH PEDIGREE SELECTED SIRES IN HOLSTEIN FRIESIAN CROSSBRED CATTLE
    (DEPARTMENT OF ANIMAL GENETICS AND BREEDING COLLEGE OF VETERINARY SCIENCE AND ANIMAL HUSBANDRY ANAND AGRICULTURAL UNIVERSITY ANAND, 2019) Patel Ashish C.; Dr. D. N. Rank
    The present study was conducted to compare the estimated breeding values of progeny tested sires and pedigree selected sires for test day yield records of Crossbred Holstein Friesian cattle. A total of 1,20,599 first lactation records of 13,015 daughters sired by 267 sires were collected from INAPH database maintained by NDDB. Variance and covariance components for test-day milk yield (TDMY), test-day fat yield (TDFY), test-day SNF yield (TDSNFY) and test-day protein yield (TDPY) were estimated by three different random regression test day models (RRTDM), viz., Spline function, Wilmink function and Legendre polynomial (LP) functions using Average Information Restricted Maximum Likelihood (AIREML).
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    ThesisItemOpen Access
    EXPRESSION PROFILING, SNP DETECTION AND VALIDATION IN SQUAMOUS CELL CARCINOMA OF HORN IN KANKREJ CATTLE (Bos indicus) USING NEXT GENERATION SEQUENCING
    (AAU, Anand, 2014) KORINGA, PRAKASHKUMAR G.; Joshi, Chaitanya G.
    Horn cancer is a widely prevalent cancer amongst Kankrej cattle (Bos indicus) seen sporadically, especially in case of working class of castrated male animals i.e. bullocks. A transcriptome envisaged characterization as well as correlation to known genomic changes such as structural and copy number alterations, focused ins/dels and single nucleotide mutations. Here, we employed high throughput RNA-seq using GS-FLX Titanium for characterization and comparison of normal and cancerous horn transcriptome in Bos indicus. A total of 909,362 reads with average read length of 405bp for horn cancer (HC) and 583,491 reads with average read length of 411bp for horn normal (HN) were obtained by sequencing gene transcripts derived from HC and HN tissues. Assembled data were analyzed for identifying novel as well as differentially expressed transcripts using CLC Genome Workbench. RNA-seq analysis using different bioinformatics pipelines and software identified differentially expressed genes i.e. upregulation of KRT6A, KRT6B, KRT6C, KRT14, SFN, KRT84, PI3, CAl, C0L17A1, ANLN, SERPINB5 etc., as well as down-regulation of NR4A1, FOSB, LRIGl, BOLA, SCGBIAI, CXCL17, KRT19, BPIFBl, NR4A1 and TFF3 etc., in HC tissues. The signaling pathway investigation in this study revealed many of the cancer related pathways which mainly include cell cycle regulation pathways, p53 tumor suppressor pathways, NFKB and MAPKs pathways, LPS signaling pathway and PI3K-Akt pathways. The resuh of transcriptome expression profiling was validated using RT-qPCR in nine randomly selected genes. It revealed concordance of gene expression profile with RNA-seq analysis. We also used transcriptome data to elucidate complexity of the alternative splicing in HC transcriptome. We identified potential candidate splice variants that might be helpful in development of relevant biomarkers for early diagnosis of HC. The fiiture studies targeted at in depth characterization of these potential candidate splice variants might change the currently used clinical approaches. Herein we characterized global landscape of alternative splicing events exhibited by pair of HC and HN tissue and confirmed selected alternative splicing events with significant association to HC by RT-qPCR. Ine analysis of the same RNA-seq data using SeqMan Pro Version 10.0.0 resulted in to a 9532 and 7065 SNPs as well as 1171 and 1172 Indels in HC and HN, respectively. Out of total, 7889 SNPs and 1736 Indels uniquely present in HC, 5886 SNPs and 1146 Indels uniquely present in HN are novel and reported first time in Bos indicus, whereas rest are already reported in Bos taurus dbSNP database at NCBI. The gene-associated SNPs and Indels were high in upregulated genes of HC as compared to HN tissues. SNPs identified in RNA-seq analysis were validated in fiirther studies in two groups consisting of 50 animals each of HC and HN bullocks. DNA from HC tissue and blood of HN individual was extracted and 96 pairs of primers were used to generate amplicons of an average 300bp to get sequenced using Ion Torrent PGM. The resulting reads were assembled using SeqMan N Gen of DNASTAR and data were analyzed using Arraystarll. Case control analysis was carried out to find SNP significantly associated with HC. SNP at position 63251805 (dBSNP ID rsl36870681) identified in BPIFAl can serve as a potential candidate genetic marker in HC. The SNPs and Indels identified in this study will be useful resource for future studies to understand genetic basis for phenotypic variation between Bos taurus and Bos indicus as well as cancers in animals. A very large number of SNPs are essential for the designing and construction of arrays. SNPs identified in this study will enrich the dbSNP database of NCBI (http://www.ncbi.nlm. nih.gov/projects/SNP/) and will be useful resource for array designing. This study is the first attempt to reveal novel transcripts, differentially expressed genes as well as identification and validation of SNPs using digital expression analysis in Bos indicus and provides novel insights into bovine transcriptome. Our study will serve as a step further in detailed characterization of HC transcriptome and provide firm base to explore and mitigate HC at finer resolution. The present findings would provide basis for further screening of genes and identification of markers for early diagnosis and therapeutic intervention of HC.
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    ThesisItemOpen Access
    Study of Pituitary transcription factor, Insulin like growth factor, Leptin, Oxidized low density lipoprotein receptor 1 and Proteases inhibitor gene loci in Mehsana buffaloes
    (AAU, Anand, 2009) Deshpande, Manisha Ramesh; Rank, D. N.
    The present work was carried out to study the polymorphism in Pituitary transcription factor (PITl exon 6), Insulin like growth factor (IGFl exon 4), Leptin (exon 2), Oxidized low density lipoprotein receptor 1 (OLRl 3'UTR) and proteases inhibitor gene (PI exon 2) loci in Mehsana buffaloes through PCR-RFLP and sequencing in Mehsana buffaloes. DNA extraction was carried out by John's method from sixty blood samples of non related Mehsana buffaloes from the animals registered under progeny testing programme of Dudhsagar Research and Development Association (DURDA), Mehsana. Locus specific primers were used for PCR amplification for each of five loci. The fragment of 451bp of Pit-1 was amplified by PCR, using the primers reported by Renaville et al. (1997) and digested with restriction enzyme Hinfl. All the samples showed identical restriction pattern consisting of one site at 207 bp obtaining two fiiagments of 207bp and 244 bp. All the animals revealed monomorphic pattern with BB genotype. This result indicated no polymorphism existing in Mehsana buffalo at Pitl exon 6 locus as revealed by Hinfl RFLP. The study revealed only one allele B fixed in Mehsana buffalo with allele frequency 1.0. PCR products of representative samples were purified and cloned in pTZ57R/T vector of InsT/Aclone TM kit. Ligated recombinant vector was transformed in competent E. coli (DH5-a) cells. Recombinant plasmids were obtained and used for cycle sequencing. Sequencing revealed G—>T variation between cattle and buffalo at 283 nucleotide position. The fragment of 320 bp of IGF Iwas amplified by polymerase chain reaction, using the primers reported byDierkes e^a/.(1999) and digested with Ecol30I. On screening the IGF/Ecol30I polymorphism in Mehsana buffalo, all the animals revealed monomorphic pattern with three bands of 34, 127, and 159 bp (B allele) indicating two RE sites at 127 and 161 bp position. The investigation revealed B allele fixed in Mehsana buffaloes. As there is no polymorphism, association analysis is not warranted. PCR products of 320bp of IGF-1 (exon 4) from representative samples were purified and cloned in pTZ57R/T vector. Recombinant plasmids were obtained and used for cycle sequencing. The nucleotide sequence variation between cattle and buffalo was present at four nucleotide positions i.e. 35bp, 102bp, 132bp, 257 bp. The fragment of 331 bp of leptin gene loci was amplified by PCR, using the primers reported by Haegeman et al. (2000). Amplified products were digested with HphI and electrophoresed on 2% agarose. All the samples showed identical restriction pattern with 331 bp fiugment only. On screening the Leptia/HphI polymorphism in Mehsana buffalo one genotype AA was observed indicating allele A fixed in Mehsana buffalo. Representative sample PCR products of 331bp of leptin (exon 2) was purified and cloned in pTZ57R/T vector. Recombinant plasmids were obtained and used for cycle sequencing. The nucleotide sequence variation between cattle and buffalo was presentat six nucleotide positions i.e. 100,112,119,135,185,321. OLRl 3' UTR region was explored for Pst 1 RFLP in Mehsana buffalo. The primers reported by Khatib et al. (2006) for Bos taunts could not amplify the region in Mehsana buffaloes. Hence, new primer sets were designed using Bioinformatic tools, Primer 3.0 and Primer Express softwares (http://www.genome.wi.mit.edu/cgi bin/primer/primer3_www.cgi) on the basis of gene sequence available in the data base NW_174132.2. A 288 bp fragment of OLR gene loci was amplified by PCR, using the designed primers and digested with Pst 1. It has aPst 1 site at 215 bp and produced two fragments of 215 and 73 bp. Representative sample PCR products of 288 bp (3'UTR) was purified and cloned in pTZ57R/T vector. Recombinant plasmids were obtained and used for cycle sequencing. The nucleotide sequence variation between cattle and buffalo was present at nine nucleotide positions i.e. 85,91,116,129,151,168,171,217,240. The fragment of 448 bp of PI gene loci was amplified by PCR, using the primers reported by Khatib et al. (2005) and digested with restriction enzyme SfaNI. SfaNI digestion of PI axon 2 gene fragments revealed monomorphic pattern with appearance of three bands of 242bp, 124bp, 82 bp (B allele) in all the samples. Representative sample PCR products of 448 bp of PI (exon 2) was purified and cloned in pTZ57R/T vector. Recombinant plasmids were obtained and used for cycle sequencing. The nucleotide sequence variation between cattle and buffalo was present at ten nucleotide positions i.e. 110,141,146,170,236,257,277,306,350,396. None of the polymorphic site reported in cattle for PITl, IGFl, Leptin, OLRl and PI could be verified in buffalo. Genomic nucleotide sequences of PITl, IGFl, Leptin, OLRl and PI was submitted to Genbank of NCBI database. Bankit online sequence submission tool was used for submission of sequences to Genbank. 1. GQ385224: Bubalus bubalis POU domain class 1 transcription factor 1 (PITl) gene, exon 6 and partial cds. 2. GQ385225 : Bubalus bubalis serpin peptidase inhibitor clade A member 1 (SERPINAl) gene, partial cds. 3. GQ385226: Bubalus bubalis oxidized low density lipoprotein receptor 1 (OLRl)gene,3'UTR. 4. GQ385227: Bubalus bubalis insulin-like growth factor 1 (IGFl) gene, exon 4 and partial cds. 5. GQ385228: Bubalus bubalis leptin gene, exon 2 and partial cds.