Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix)
This study aimed to identify and validate male-specific genomic markers for two economically significant aquaculture species: catla (Labeo catla syn. Catla catla) and silver carp (Hypophthalmichthys molitrix). Using conserved male-specific genomic regions from closely related species—rohu (Labeo roh...
| Autores principales: | , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Elsevier
2026
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/176547 |
| _version_ | 1855516303402467328 |
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| author | Hamilton, Matthew G. Akhter, Md. Masud Shanta, Sirajum Monira Roy, Aashish Kumar Rahman, Md. Mustafizur Sarkar, Uzzal Kumar Kamruzzaman, Md. Benzie, John A.H. |
| author_browse | Akhter, Md. Masud Benzie, John A.H. Hamilton, Matthew G. Kamruzzaman, Md. Rahman, Md. Mustafizur Roy, Aashish Kumar Sarkar, Uzzal Kumar Shanta, Sirajum Monira |
| author_facet | Hamilton, Matthew G. Akhter, Md. Masud Shanta, Sirajum Monira Roy, Aashish Kumar Rahman, Md. Mustafizur Sarkar, Uzzal Kumar Kamruzzaman, Md. Benzie, John A.H. |
| author_sort | Hamilton, Matthew G. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | This study aimed to identify and validate male-specific genomic markers for two economically significant aquaculture species: catla (Labeo catla syn. Catla catla) and silver carp (Hypophthalmichthys molitrix). Using conserved male-specific genomic regions from closely related species—rohu (Labeo rohita) and bighead carp (Hypophthalmichthys nobilis)—short sequence fragments were aligned to catla and silver carp genome assemblies to identify candidate male-specific markers. These markers were incorporated into DArTag panels and evaluated, according to read-count thresholds, in individuals of known visually-assessed or functional (i.e. reproductive) phenotypic sex (PSEX). Consistent with a XX/XY sex determination system, the sequences were expected to be present in males and absent in females. In catla, three markers predicted functional PSEX with 94.7 % accuracy. Notably 10 out of 123 genotyped catla dams were marker-assigned a genotypic sex (GSEX) of male, likely due to the presence of marker sequences in non-sex-determining genomic regions. For silver carp, 11 markers demonstrated a very high accuracy of 99.7 % in predicting visually-assigned PSEX. The markers and methods identified in this study represent promising tools for efficient and accurate sex determination in catla and silver carp, though further validation across different populations is recommended to ensure their broader applicability. The identified markers showed strong potential for practical application in aquaculture, particularly for the quantification of sexual dimorphism in immature fish and identification of sex-reversed individuals, in addition to their use in genetic improvement programs. |
| format | Journal Article |
| id | CGSpace176547 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2026 |
| publishDateRange | 2026 |
| publishDateSort | 2026 |
| publisher | Elsevier |
| publisherStr | Elsevier |
| record_format | dspace |
| spelling | CGSpace1765472025-10-26T13:02:46Z Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix) Hamilton, Matthew G. Akhter, Md. Masud Shanta, Sirajum Monira Roy, Aashish Kumar Rahman, Md. Mustafizur Sarkar, Uzzal Kumar Kamruzzaman, Md. Benzie, John A.H. aquaculture Catla genomes Hypophthalmichthys molitrix This study aimed to identify and validate male-specific genomic markers for two economically significant aquaculture species: catla (Labeo catla syn. Catla catla) and silver carp (Hypophthalmichthys molitrix). Using conserved male-specific genomic regions from closely related species—rohu (Labeo rohita) and bighead carp (Hypophthalmichthys nobilis)—short sequence fragments were aligned to catla and silver carp genome assemblies to identify candidate male-specific markers. These markers were incorporated into DArTag panels and evaluated, according to read-count thresholds, in individuals of known visually-assessed or functional (i.e. reproductive) phenotypic sex (PSEX). Consistent with a XX/XY sex determination system, the sequences were expected to be present in males and absent in females. In catla, three markers predicted functional PSEX with 94.7 % accuracy. Notably 10 out of 123 genotyped catla dams were marker-assigned a genotypic sex (GSEX) of male, likely due to the presence of marker sequences in non-sex-determining genomic regions. For silver carp, 11 markers demonstrated a very high accuracy of 99.7 % in predicting visually-assigned PSEX. The markers and methods identified in this study represent promising tools for efficient and accurate sex determination in catla and silver carp, though further validation across different populations is recommended to ensure their broader applicability. The identified markers showed strong potential for practical application in aquaculture, particularly for the quantification of sexual dimorphism in immature fish and identification of sex-reversed individuals, in addition to their use in genetic improvement programs. 2026-01 2025-09-17T19:13:20Z 2025-09-17T19:13:20Z Journal Article https://hdl.handle.net/10568/176547 en Open Access Elsevier Hamilton, Matthew G.; Akhter, Md. Masud; Shanta, Sirajum Monira; Roy, Aashish Kumar; Rahman, Md. Mustafizur; Sarkar, Uzzal Kumar; Kamruzzaman, Md.; and Benzie, John A.H. 2026. Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix). Aquaculture 612, part 1(15 January 2026): 743168. https://doi.org/10.1016/j.aquaculture.2025.743168 |
| spellingShingle | aquaculture Catla genomes Hypophthalmichthys molitrix Hamilton, Matthew G. Akhter, Md. Masud Shanta, Sirajum Monira Roy, Aashish Kumar Rahman, Md. Mustafizur Sarkar, Uzzal Kumar Kamruzzaman, Md. Benzie, John A.H. Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix) |
| title | Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix) |
| title_full | Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix) |
| title_fullStr | Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix) |
| title_full_unstemmed | Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix) |
| title_short | Exploiting interspecific conservation of male-specific genomic regions to develop markers for sex determination in catla (Labeo catla) and silver carp (Hypophthalmichthys molitrix) |
| title_sort | exploiting interspecific conservation of male specific genomic regions to develop markers for sex determination in catla labeo catla and silver carp hypophthalmichthys molitrix |
| topic | aquaculture Catla genomes Hypophthalmichthys molitrix |
| url | https://hdl.handle.net/10568/176547 |
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