Genome assembly of indigenous Gaddi dog
Dog is one of the oldest domesticated animals and the most familiar pet to mankind. The Gaddi dogs are robust and healthy and have been associated with herding and guarding for ancient times in the Himalayan vis-à-vis neighboring states like Himachal Pradesh, Uttarakhand, and Punjab. No information...
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| Format: | Article |
| Language: | English |
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Indian Council of Agricultural Research
2025-02-01
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| Series: | Indian Journal of Animal Sciences |
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| Online Access: | https://epubs.icar.org.in/index.php/IJAnS/article/view/140822 |
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| author | C S MUKHOPADHYAY KANWALJIT RANA |
| author_facet | C S MUKHOPADHYAY KANWALJIT RANA |
| author_sort | C S MUKHOPADHYAY |
| collection | DOAJ |
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Dog is one of the oldest domesticated animals and the most familiar pet to mankind. The Gaddi dogs are robust and healthy and have been associated with herding and guarding for ancient times in the Himalayan vis-à-vis neighboring states like Himachal Pradesh, Uttarakhand, and Punjab. No information is available about the genetic architecture of these indigenous dogs. The present study was designed to sequence and assemble nuclear genome of Indigenous Gaddi dog for its genetic characterization. The blood samples were collected from five unrelated Gaddi dogs from the state of Punjab and Himachal Pradesh. The Illumina 150bp paired-end sequencing was done and 491.9 G raw data was generated with an error rate of 0.03% for all five samples. The quality of data was checked by using FastQC and Fastp tools. The Q30 of the processed data ranged from 90.5% to 93.3% and %GC from 40.1% to 41.5%. The genome assembly was done using Maryland Super Reads Celera Assembler (MaSuRCA). The number of contigs obtained for individual genome assemblies varied from 437250 to 455342, the N50 value ranged from 10028 to 10839 and the average contig length ranged from 5118 to 5344 bases. The raw sequence reads have been submitted to NCBI Bioproject id PRJNA843534 (SRA Accession: SRR22387066 to SRR22387070). The genetic tapestry of the Gaddi dogs has been revealed through this sequencing shot. Further, the enrichment of the genome assembly and annotation can have a deeper insight into the Gaddi dog’s hidden potential and diverse adaptation behaviour.
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| format | Article |
| id | doaj-art-754e27bd7785474e838023eebf8f3f6d |
| institution | DOAJ |
| issn | 0367-8318 2394-3327 |
| language | English |
| publishDate | 2025-02-01 |
| publisher | Indian Council of Agricultural Research |
| record_format | Article |
| series | Indian Journal of Animal Sciences |
| spelling | doaj-art-754e27bd7785474e838023eebf8f3f6d2025-08-20T03:23:37ZengIndian Council of Agricultural ResearchIndian Journal of Animal Sciences0367-83182394-33272025-02-0195210.56093/ijans.v95i2.140822Genome assembly of indigenous Gaddi dogC S MUKHOPADHYAY0KANWALJIT RANA1Guru Angad Dev Veterinary and Animal Sciences University, Ludhiana, Punjab-141002Guru Angad Dev Veterinary and Animal Sciences University, Ludhiana, Punjab-141002 Dog is one of the oldest domesticated animals and the most familiar pet to mankind. The Gaddi dogs are robust and healthy and have been associated with herding and guarding for ancient times in the Himalayan vis-à-vis neighboring states like Himachal Pradesh, Uttarakhand, and Punjab. No information is available about the genetic architecture of these indigenous dogs. The present study was designed to sequence and assemble nuclear genome of Indigenous Gaddi dog for its genetic characterization. The blood samples were collected from five unrelated Gaddi dogs from the state of Punjab and Himachal Pradesh. The Illumina 150bp paired-end sequencing was done and 491.9 G raw data was generated with an error rate of 0.03% for all five samples. The quality of data was checked by using FastQC and Fastp tools. The Q30 of the processed data ranged from 90.5% to 93.3% and %GC from 40.1% to 41.5%. The genome assembly was done using Maryland Super Reads Celera Assembler (MaSuRCA). The number of contigs obtained for individual genome assemblies varied from 437250 to 455342, the N50 value ranged from 10028 to 10839 and the average contig length ranged from 5118 to 5344 bases. The raw sequence reads have been submitted to NCBI Bioproject id PRJNA843534 (SRA Accession: SRR22387066 to SRR22387070). The genetic tapestry of the Gaddi dogs has been revealed through this sequencing shot. Further, the enrichment of the genome assembly and annotation can have a deeper insight into the Gaddi dog’s hidden potential and diverse adaptation behaviour. https://epubs.icar.org.in/index.php/IJAnS/article/view/140822DNA, Gaddi dog, Genome assembly, Indigenous, Sequencing |
| spellingShingle | C S MUKHOPADHYAY KANWALJIT RANA Genome assembly of indigenous Gaddi dog Indian Journal of Animal Sciences DNA, Gaddi dog, Genome assembly, Indigenous, Sequencing |
| title | Genome assembly of indigenous Gaddi dog |
| title_full | Genome assembly of indigenous Gaddi dog |
| title_fullStr | Genome assembly of indigenous Gaddi dog |
| title_full_unstemmed | Genome assembly of indigenous Gaddi dog |
| title_short | Genome assembly of indigenous Gaddi dog |
| title_sort | genome assembly of indigenous gaddi dog |
| topic | DNA, Gaddi dog, Genome assembly, Indigenous, Sequencing |
| url | https://epubs.icar.org.in/index.php/IJAnS/article/view/140822 |
| work_keys_str_mv | AT csmukhopadhyay genomeassemblyofindigenousgaddidog AT kanwaljitrana genomeassemblyofindigenousgaddidog |