Polymorphic insertions of DcSto miniature inverted-repeat transposable elements reveal trajectories of carrot improvement DOI

Santosh Hadagali,

Katarzyna Stelmach, Alicja Macko‐Podgórni

и другие.

Research Square (Research Square), Год журнала: 2024, Номер unknown

Опубликована: Сен. 18, 2024

Abstract Miniature inverted-repeat transposable elements (MITEs) are a potent source of polymorphisms in plant genomes. A genotyping system, named DcS-ILP, based on polymorphic insertions Stowaway MITEs (DcStos) localized introns and identified the reference genome DH1 has been developed for carrot. Here, we report an extension DcS-ILP system by incorporation non-reference resequenced genomes representing eastern gene pool. We genotyped 52 carrot accessions western pools with 92 markers previously (western panel) together 84 newly (eastern panel). Overall, revealed highly structured genetic diversity separating at K = 2 differentiating Indian breeding lines from 3. The panel proved to be more robust respect pool while it provided little information accessions, as many DcSto present were absent As represent improved cultivars, insertional allowed detection selection-driven bottleneck improvement stage. Selection course stage generally operated standing variation, subset likely originated transposition events preceding separation both pools. However, occasional frequency shifts opposite direction also revealed, possibly indicating selection favorable variants associated insertions.

Язык: Английский

Polymorphic insertions of DcSto miniature inverted-repeat transposable elements reveal genetic diversity structure within the cultivated carrot DOI Creative Commons

Santosh Hadagali,

Katarzyna Stelmach, Alicja Macko‐Podgórni

и другие.

Journal of Applied Genetics, Год журнала: 2024, Номер unknown

Опубликована: Окт. 28, 2024

Abstract Miniature inverted-repeat transposable elements (MITEs) are a potent source of polymorphisms in plant genomes. A genotyping system, named DcS -ILP, based on polymorphic insertions Stowaway MITEs ( DcSto s) localized introns and identified the reference genome DH1, has been developed for carrot. Here, we report an extension -ILP system by incorporation non-reference resequenced genomes representing eastern gene pool. We genotyped 52 carrot accessions western pools with 92 markers previously (western panel) together 84 newly (eastern panel). Overall, revealed highly structured genetic diversity separating at K = 2 differentiating Indian breeding lines from 3. The panel proved to be more robust respect pool, while it provided little information accessions, as many present pool were absent As represent improved cultivars, insertional allowed detection selection-driven bottleneck improvement stage. Selection course stage generally operated standing variation, subset likely originated transposition events preceding separation both pools. However, occasional frequency shifts opposite direction also revealed, possibly indicating selection favorable variants associated insertions.

Язык: Английский

Процитировано

1
Polymorphic insertions of DcSto miniature inverted-repeat transposable elements reveal trajectories of carrot improvement DOI

Santosh Hadagali,

Katarzyna Stelmach, Alicja Macko‐Podgórni

и другие.

Research Square (Research Square), Год журнала: 2024, Номер unknown

Опубликована: Сен. 18, 2024

Abstract Miniature inverted-repeat transposable elements (MITEs) are a potent source of polymorphisms in plant genomes. A genotyping system, named DcS-ILP, based on polymorphic insertions Stowaway MITEs (DcStos) localized introns and identified the reference genome DH1 has been developed for carrot. Here, we report an extension DcS-ILP system by incorporation non-reference resequenced genomes representing eastern gene pool. We genotyped 52 carrot accessions western pools with 92 markers previously (western panel) together 84 newly (eastern panel). Overall, revealed highly structured genetic diversity separating at K = 2 differentiating Indian breeding lines from 3. The panel proved to be more robust respect pool while it provided little information accessions, as many DcSto present were absent As represent improved cultivars, insertional allowed detection selection-driven bottleneck improvement stage. Selection course stage generally operated standing variation, subset likely originated transposition events preceding separation both pools. However, occasional frequency shifts opposite direction also revealed, possibly indicating selection favorable variants associated insertions.

Язык: Английский

Процитировано

0