Mitochondrial phylogenetic and diversity analysis in Azi-Kheli buffalo
Novelty statement The present study was conducted for the first time in Pakistan to investigate Cytochrome C Oxidase Subunit 1 (CO1) gene and full-length Displacement Loop (D-loop) region of mitochondrial DNA in Azi-Kheli buffalo breed native to northern hilly areas of Khyber Pakhtunkhwa Province of...
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| Veröffentlicht in: | Tropical animal health and production 2021-11, Vol.53 (5), p.512-512, Article 512 |
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| creator | Ali, Farhad Ahmad, Ijaz Ali, Muhammad Ijaz Riaz, Muhammad Hasnain Khan, Nadar Ullah, Obaid Hassan, Faizul Suhail, Syed Muhammad Khan, Rajwali Khan, Muhammad Tahir Ahmad, Irshad Zeb, Muhammad Tariq |
| description | Novelty statement
The present study was conducted for the first time in Pakistan to investigate
Cytochrome C Oxidase Subunit 1 (CO1) gene
and full-length
Displacement Loop (D-loop)
region of mitochondrial DNA in Azi-Kheli buffalo breed native to northern hilly areas of Khyber Pakhtunkhwa Province of Pakistan. The present study was designed to investigate phylogeny and diversity in Azi-Kheli buffalo, through two mitochondrial DNA regions, i.e.,
Cytochrome C Oxidase Subunit-I (CO1) and Displacement Loop (D-loop)
region. Thirty (30) blood samples were taken from Azi-Kheli pure breed animals from original breeding tract, i.e., Khwazakhela, Swat. Polymerase chain reactions using gene-specific primers were carried out for amplifying 709-bp region of
CO1
gene and 1159-bp region of
D-Loop
for identification, phylogeny, and diversity in Azi-Kheli buffalo, respectively. The sequences of
CO1
gene revealed four (04) haplotypes, whereas
D-loop
sequences revealed five (05) haplotypes. Mean interspecific diversity with related species was 2.56%, and mean intraspecific diversity within Azi-Kheli buffalo was 0.25%, estimated via Kimura-2 parameter. Phylogenetic tree (maximum likelihood) revealed clustering of Azi-Kheli haplotypes with river buffalo and is distinct from swamp buffalo and other related species of genus Bubalus. Mean haplotype and nucleotide diversity of
D-loop
were Hd = 0.9601 ± SD = 0.096 and π = 0.01208 ± SD = 0.00182, respectively. Phylogenetic tree (neighbor-joining) revealed two main clades, i.e., river buffalo and swamp buffalo clade. The haplotypes of Azi-Kheli clustered with haplotypes of different river buffalo breeds at different positions. The current study suggests that Azi-Kheli has common origin with other river buffalo breeds; hence, it is river buffalo which harbors high genetic diversity. |
| doi_str_mv | 10.1007/s11250-021-02949-z |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_2581278595</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2586663714</sourcerecordid><originalsourceid>FETCH-LOGICAL-c380t-60ecc66b36e97d40bdc163bf161ca7db3bf8c41ca9fa2f00918025ee659926383</originalsourceid><addsrcrecordid>eNqFkU1LxDAQhoMouH78AU8FL16qk6TNx3FZXBVXvOg5tGm6m6XbrEkrdH-92a0geNDDMB8878DMi9AVhlsMwO8CxiSHFAiOITOZ7o7QBOecpjyj4hhNAOIw4xk_RWchrAGiTLAJmr_YzumVaytviybZrobGLU1rOquToq2Syn4aH2w3xK5ohmBDYttkurPp88o0Nin7ui4ad4FOYgrm8jufo_f5_dvsMV28PjzNpotUUwFdysBozVhJmZG8yqCsNGa0rDHDuuBVGUuhs1jLuiA1gMQCSG4My6UkjAp6jm7GvVvvPnoTOrWxQZumKVrj-qBILjDhIpd5RK9_oWvX-3jEgWKMUY6zfyi8_xLfU2SktHcheFOrrbebwg8Kg9oboEYDVDRAHQxQuyiioyhEuF0a_7P6D9UXttCH9w</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2581100874</pqid></control><display><type>article</type><title>Mitochondrial phylogenetic and diversity analysis in Azi-Kheli buffalo</title><source>SpringerLink Journals - AutoHoldings</source><creator>Ali, Farhad ; Ahmad, Ijaz ; Ali, Muhammad Ijaz ; Riaz, Muhammad Hasnain ; Khan, Nadar ; Ullah, Obaid ; Hassan, Faizul ; Suhail, Syed Muhammad ; Khan, Rajwali ; Khan, Muhammad Tahir ; Ahmad, Irshad ; Zeb, Muhammad Tariq</creator><creatorcontrib>Ali, Farhad ; Ahmad, Ijaz ; Ali, Muhammad Ijaz ; Riaz, Muhammad Hasnain ; Khan, Nadar ; Ullah, Obaid ; Hassan, Faizul ; Suhail, Syed Muhammad ; Khan, Rajwali ; Khan, Muhammad Tahir ; Ahmad, Irshad ; Zeb, Muhammad Tariq</creatorcontrib><description>Novelty statement
The present study was conducted for the first time in Pakistan to investigate
Cytochrome C Oxidase Subunit 1 (CO1) gene
and full-length
Displacement Loop (D-loop)
region of mitochondrial DNA in Azi-Kheli buffalo breed native to northern hilly areas of Khyber Pakhtunkhwa Province of Pakistan. The present study was designed to investigate phylogeny and diversity in Azi-Kheli buffalo, through two mitochondrial DNA regions, i.e.,
Cytochrome C Oxidase Subunit-I (CO1) and Displacement Loop (D-loop)
region. Thirty (30) blood samples were taken from Azi-Kheli pure breed animals from original breeding tract, i.e., Khwazakhela, Swat. Polymerase chain reactions using gene-specific primers were carried out for amplifying 709-bp region of
CO1
gene and 1159-bp region of
D-Loop
for identification, phylogeny, and diversity in Azi-Kheli buffalo, respectively. The sequences of
CO1
gene revealed four (04) haplotypes, whereas
D-loop
sequences revealed five (05) haplotypes. Mean interspecific diversity with related species was 2.56%, and mean intraspecific diversity within Azi-Kheli buffalo was 0.25%, estimated via Kimura-2 parameter. Phylogenetic tree (maximum likelihood) revealed clustering of Azi-Kheli haplotypes with river buffalo and is distinct from swamp buffalo and other related species of genus Bubalus. Mean haplotype and nucleotide diversity of
D-loop
were Hd = 0.9601 ± SD = 0.096 and π = 0.01208 ± SD = 0.00182, respectively. Phylogenetic tree (neighbor-joining) revealed two main clades, i.e., river buffalo and swamp buffalo clade. The haplotypes of Azi-Kheli clustered with haplotypes of different river buffalo breeds at different positions. The current study suggests that Azi-Kheli has common origin with other river buffalo breeds; hence, it is river buffalo which harbors high genetic diversity.</description><identifier>ISSN: 0049-4747</identifier><identifier>EISSN: 1573-7438</identifier><identifier>DOI: 10.1007/s11250-021-02949-z</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Biomedical and Life Sciences ; Buffalo ; Clustering ; Cytochrome ; Cytochrome-c oxidase ; Cytochromes ; Deoxyribonucleic acid ; DNA ; Gene sequencing ; Genetic diversity ; Haplotypes ; Life Sciences ; Mitochondrial DNA ; Nucleotides ; Oxidase ; Phylogenetics ; Phylogeny ; Polymerase chain reaction ; Regular Articles ; Rivers ; Species diversity ; Veterinary Medicine/Veterinary Science ; Zoology</subject><ispartof>Tropical animal health and production, 2021-11, Vol.53 (5), p.512-512, Article 512</ispartof><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2021</rights><rights>The Author(s), under exclusive licence to Springer Nature B.V. 2021.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c380t-60ecc66b36e97d40bdc163bf161ca7db3bf8c41ca9fa2f00918025ee659926383</citedby><cites>FETCH-LOGICAL-c380t-60ecc66b36e97d40bdc163bf161ca7db3bf8c41ca9fa2f00918025ee659926383</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11250-021-02949-z$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11250-021-02949-z$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids></links><search><creatorcontrib>Ali, Farhad</creatorcontrib><creatorcontrib>Ahmad, Ijaz</creatorcontrib><creatorcontrib>Ali, Muhammad Ijaz</creatorcontrib><creatorcontrib>Riaz, Muhammad Hasnain</creatorcontrib><creatorcontrib>Khan, Nadar</creatorcontrib><creatorcontrib>Ullah, Obaid</creatorcontrib><creatorcontrib>Hassan, Faizul</creatorcontrib><creatorcontrib>Suhail, Syed Muhammad</creatorcontrib><creatorcontrib>Khan, Rajwali</creatorcontrib><creatorcontrib>Khan, Muhammad Tahir</creatorcontrib><creatorcontrib>Ahmad, Irshad</creatorcontrib><creatorcontrib>Zeb, Muhammad Tariq</creatorcontrib><title>Mitochondrial phylogenetic and diversity analysis in Azi-Kheli buffalo</title><title>Tropical animal health and production</title><addtitle>Trop Anim Health Prod</addtitle><description>Novelty statement
The present study was conducted for the first time in Pakistan to investigate
Cytochrome C Oxidase Subunit 1 (CO1) gene
and full-length
Displacement Loop (D-loop)
region of mitochondrial DNA in Azi-Kheli buffalo breed native to northern hilly areas of Khyber Pakhtunkhwa Province of Pakistan. The present study was designed to investigate phylogeny and diversity in Azi-Kheli buffalo, through two mitochondrial DNA regions, i.e.,
Cytochrome C Oxidase Subunit-I (CO1) and Displacement Loop (D-loop)
region. Thirty (30) blood samples were taken from Azi-Kheli pure breed animals from original breeding tract, i.e., Khwazakhela, Swat. Polymerase chain reactions using gene-specific primers were carried out for amplifying 709-bp region of
CO1
gene and 1159-bp region of
D-Loop
for identification, phylogeny, and diversity in Azi-Kheli buffalo, respectively. The sequences of
CO1
gene revealed four (04) haplotypes, whereas
D-loop
sequences revealed five (05) haplotypes. Mean interspecific diversity with related species was 2.56%, and mean intraspecific diversity within Azi-Kheli buffalo was 0.25%, estimated via Kimura-2 parameter. Phylogenetic tree (maximum likelihood) revealed clustering of Azi-Kheli haplotypes with river buffalo and is distinct from swamp buffalo and other related species of genus Bubalus. Mean haplotype and nucleotide diversity of
D-loop
were Hd = 0.9601 ± SD = 0.096 and π = 0.01208 ± SD = 0.00182, respectively. Phylogenetic tree (neighbor-joining) revealed two main clades, i.e., river buffalo and swamp buffalo clade. The haplotypes of Azi-Kheli clustered with haplotypes of different river buffalo breeds at different positions. The current study suggests that Azi-Kheli has common origin with other river buffalo breeds; hence, it is river buffalo which harbors high genetic diversity.</description><subject>Biomedical and Life Sciences</subject><subject>Buffalo</subject><subject>Clustering</subject><subject>Cytochrome</subject><subject>Cytochrome-c oxidase</subject><subject>Cytochromes</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Gene sequencing</subject><subject>Genetic diversity</subject><subject>Haplotypes</subject><subject>Life Sciences</subject><subject>Mitochondrial DNA</subject><subject>Nucleotides</subject><subject>Oxidase</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Polymerase chain reaction</subject><subject>Regular Articles</subject><subject>Rivers</subject><subject>Species diversity</subject><subject>Veterinary Medicine/Veterinary Science</subject><subject>Zoology</subject><issn>0049-4747</issn><issn>1573-7438</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2021</creationdate><recordtype>article</recordtype><sourceid>BENPR</sourceid><recordid>eNqFkU1LxDAQhoMouH78AU8FL16qk6TNx3FZXBVXvOg5tGm6m6XbrEkrdH-92a0geNDDMB8878DMi9AVhlsMwO8CxiSHFAiOITOZ7o7QBOecpjyj4hhNAOIw4xk_RWchrAGiTLAJmr_YzumVaytviybZrobGLU1rOquToq2Syn4aH2w3xK5ohmBDYttkurPp88o0Nin7ui4ad4FOYgrm8jufo_f5_dvsMV28PjzNpotUUwFdysBozVhJmZG8yqCsNGa0rDHDuuBVGUuhs1jLuiA1gMQCSG4My6UkjAp6jm7GvVvvPnoTOrWxQZumKVrj-qBILjDhIpd5RK9_oWvX-3jEgWKMUY6zfyi8_xLfU2SktHcheFOrrbebwg8Kg9oboEYDVDRAHQxQuyiioyhEuF0a_7P6D9UXttCH9w</recordid><startdate>20211101</startdate><enddate>20211101</enddate><creator>Ali, Farhad</creator><creator>Ahmad, Ijaz</creator><creator>Ali, Muhammad Ijaz</creator><creator>Riaz, Muhammad Hasnain</creator><creator>Khan, Nadar</creator><creator>Ullah, Obaid</creator><creator>Hassan, Faizul</creator><creator>Suhail, Syed Muhammad</creator><creator>Khan, Rajwali</creator><creator>Khan, Muhammad Tahir</creator><creator>Ahmad, Irshad</creator><creator>Zeb, Muhammad Tariq</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QL</scope><scope>7T7</scope><scope>7U7</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>7X8</scope></search><sort><creationdate>20211101</creationdate><title>Mitochondrial phylogenetic and diversity analysis in Azi-Kheli buffalo</title><author>Ali, Farhad ; Ahmad, Ijaz ; Ali, Muhammad Ijaz ; Riaz, Muhammad Hasnain ; Khan, Nadar ; Ullah, Obaid ; Hassan, Faizul ; Suhail, Syed Muhammad ; Khan, Rajwali ; Khan, Muhammad Tahir ; Ahmad, Irshad ; Zeb, Muhammad Tariq</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c380t-60ecc66b36e97d40bdc163bf161ca7db3bf8c41ca9fa2f00918025ee659926383</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2021</creationdate><topic>Biomedical and Life Sciences</topic><topic>Buffalo</topic><topic>Clustering</topic><topic>Cytochrome</topic><topic>Cytochrome-c oxidase</topic><topic>Cytochromes</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>Gene sequencing</topic><topic>Genetic diversity</topic><topic>Haplotypes</topic><topic>Life Sciences</topic><topic>Mitochondrial DNA</topic><topic>Nucleotides</topic><topic>Oxidase</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Polymerase chain reaction</topic><topic>Regular Articles</topic><topic>Rivers</topic><topic>Species diversity</topic><topic>Veterinary Medicine/Veterinary Science</topic><topic>Zoology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Ali, Farhad</creatorcontrib><creatorcontrib>Ahmad, Ijaz</creatorcontrib><creatorcontrib>Ali, Muhammad Ijaz</creatorcontrib><creatorcontrib>Riaz, Muhammad Hasnain</creatorcontrib><creatorcontrib>Khan, Nadar</creatorcontrib><creatorcontrib>Ullah, Obaid</creatorcontrib><creatorcontrib>Hassan, Faizul</creatorcontrib><creatorcontrib>Suhail, Syed Muhammad</creatorcontrib><creatorcontrib>Khan, Rajwali</creatorcontrib><creatorcontrib>Khan, Muhammad Tahir</creatorcontrib><creatorcontrib>Ahmad, Irshad</creatorcontrib><creatorcontrib>Zeb, Muhammad Tariq</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Toxicology Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest 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Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>MEDLINE - Academic</collection><jtitle>Tropical animal health and production</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Ali, Farhad</au><au>Ahmad, Ijaz</au><au>Ali, Muhammad Ijaz</au><au>Riaz, Muhammad Hasnain</au><au>Khan, Nadar</au><au>Ullah, Obaid</au><au>Hassan, Faizul</au><au>Suhail, Syed Muhammad</au><au>Khan, Rajwali</au><au>Khan, Muhammad Tahir</au><au>Ahmad, Irshad</au><au>Zeb, Muhammad Tariq</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Mitochondrial phylogenetic and diversity analysis in Azi-Kheli buffalo</atitle><jtitle>Tropical animal health and production</jtitle><stitle>Trop Anim Health Prod</stitle><date>2021-11-01</date><risdate>2021</risdate><volume>53</volume><issue>5</issue><spage>512</spage><epage>512</epage><pages>512-512</pages><artnum>512</artnum><issn>0049-4747</issn><eissn>1573-7438</eissn><abstract>Novelty statement
The present study was conducted for the first time in Pakistan to investigate
Cytochrome C Oxidase Subunit 1 (CO1) gene
and full-length
Displacement Loop (D-loop)
region of mitochondrial DNA in Azi-Kheli buffalo breed native to northern hilly areas of Khyber Pakhtunkhwa Province of Pakistan. The present study was designed to investigate phylogeny and diversity in Azi-Kheli buffalo, through two mitochondrial DNA regions, i.e.,
Cytochrome C Oxidase Subunit-I (CO1) and Displacement Loop (D-loop)
region. Thirty (30) blood samples were taken from Azi-Kheli pure breed animals from original breeding tract, i.e., Khwazakhela, Swat. Polymerase chain reactions using gene-specific primers were carried out for amplifying 709-bp region of
CO1
gene and 1159-bp region of
D-Loop
for identification, phylogeny, and diversity in Azi-Kheli buffalo, respectively. The sequences of
CO1
gene revealed four (04) haplotypes, whereas
D-loop
sequences revealed five (05) haplotypes. Mean interspecific diversity with related species was 2.56%, and mean intraspecific diversity within Azi-Kheli buffalo was 0.25%, estimated via Kimura-2 parameter. Phylogenetic tree (maximum likelihood) revealed clustering of Azi-Kheli haplotypes with river buffalo and is distinct from swamp buffalo and other related species of genus Bubalus. Mean haplotype and nucleotide diversity of
D-loop
were Hd = 0.9601 ± SD = 0.096 and π = 0.01208 ± SD = 0.00182, respectively. Phylogenetic tree (neighbor-joining) revealed two main clades, i.e., river buffalo and swamp buffalo clade. The haplotypes of Azi-Kheli clustered with haplotypes of different river buffalo breeds at different positions. The current study suggests that Azi-Kheli has common origin with other river buffalo breeds; hence, it is river buffalo which harbors high genetic diversity.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s11250-021-02949-z</doi><tpages>1</tpages></addata></record> |
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| ispartof | Tropical animal health and production, 2021-11, Vol.53 (5), p.512-512, Article 512 |
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| source | SpringerLink Journals - AutoHoldings |
| subjects | Biomedical and Life Sciences Buffalo Clustering Cytochrome Cytochrome-c oxidase Cytochromes Deoxyribonucleic acid DNA Gene sequencing Genetic diversity Haplotypes Life Sciences Mitochondrial DNA Nucleotides Oxidase Phylogenetics Phylogeny Polymerase chain reaction Regular Articles Rivers Species diversity Veterinary Medicine/Veterinary Science Zoology |
| title | Mitochondrial phylogenetic and diversity analysis in Azi-Kheli buffalo |
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