Isolation of subtelomeric sequences of porcine chromosomes for translocation screening reveals errors in the pig genome assembly
| Autor: | Darren K. Griffin, Gothami Fonseka, G. A. Walling, Richard Frodsham, Rebecca E. O’Connor, Alan Archibald, M. Lawrie |
|---|---|
| Rok vydání: | 2016 |
| Předmět: |
0301 basic medicine
Male medicine.medical_specialty Chromosomes Artificial Bacterial Population Karyotype Sus scrofa Sequence assembly Chromosomal translocation Biology Genome Translocation Genetic 03 medical and health sciences Genetics medicine Animals education food production In Situ Hybridization Fluorescence 2. Zero hunger education.field_of_study Bacterial artificial chromosome 0402 animal and dairy science Cytogenetics Chromosome Chromosome Mapping hypoprolificacy 04 agricultural and veterinary sciences General Medicine Articles Telomere 040201 dairy & animal science karyotype 030104 developmental biology Animal Science and Zoology Original Article bacterial artificial chromosome DNA Probes Corrigendum |
| Zdroj: | Animal Genetics O'Connor, R E, Fonseka, G, Frodsham, R, Archibald, A L, Lawrie, M, Walling, G A & Griffin, D K 2017, ' Isolation of subtelomeric sequences of porcine chromosomes for translocation screening reveals errors in the pig genome assembly ', Animal Genetics, vol. 48, no. 4, pp. 395-403 . https://doi.org/10.1111/age.12548 |
| ISSN: | 1365-2052 0268-9146 |
| DOI: | 10.1111/age.12548 |
| Popis: | Summary Balanced chromosomal aberrations have been shown to affect fertility in most species studied, often leading to hypoprolificacy (reduced litter size) in domestic animals such as pigs. With an increasing emphasis in modern food production on the use of a small population of high quality males for artificial insemination, the potential economic and environmental costs of hypoprolific boars, bulls, rams etc. are considerable. There is therefore a need for novel tools to facilitate rapid, cost-effective chromosome translocation screening. This has previously been achieved by standard karyotype analysis; however, this approach relies on a significant level of expertise and is limited in its ability to identify subtle, cryptic translocations. To address this problem, we developed a novel device and protocol for translocation screening using subtelomeric probes and fluorescence in situ hybridisation. Probes were designed using BACs (bacterial artificial chromosomes) from the subtelomeric region of the short (p-arm) and long (q-arm) of each porcine chromosome. They were directly labelled with FITC or Texas Red (p-arm and q-arm respectively) prior to application of a ‘Multiprobe’ device, thereby enabling simultaneous detection of each individual porcine chromosome on a single slide. Initial experiments designed to isolate BACs in subtelomeric regions led to the discovery of a series of incorrectly mapped regions in the porcine genome assembly (from a total of 82 BACs, only 45 BACs mapped correctly). Our work therefore highlights the importance of accurate physical mapping of newly sequenced genomes. The system herein described allows for robust and comprehensive analysis of the porcine karyotype, an adjunct to classical cytogenetics that provides a valuable tool to expedite efficient, cost effective food production. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|
Plný text