Spatial inter-centromeric interactions facilitated the emergence of evolutionary new centromeres
| Autor: | Kaustuv Sanyal, Geraldine Butler, Amartya Sanyal, Krishnendu Guin, Bhagya C. Thimmappa, Caoimhe E. O’Brien, Radha Mishra, Yao Chen, Siti Rawaidah B.M. Muzaki |
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| Přispěvatelé: | School of Biological Sciences |
| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
QH301-705.5 Inverted repeat Science Centromere chromosome segregation Genomics karyotype rearrangement Candida parapsilosis Genetic analysis Translocation Genetic 3D-genome General Biochemistry Genetics and Molecular Biology DNA sequencing Chromosome conformation capture Evolution Molecular Candida tropicalis 03 medical and health sciences 0302 clinical medicine CUG-Ser1 clade Biology (General) DNA Fungal Candida Genomic organization Genetics General Immunology and Microbiology biology General Neuroscience Biological sciences [Science] Genetics and Genomics 3D Genome General Medicine Telomere Chromosomes and Gene Expression biology.organism_classification 030104 developmental biology evolutionary new centromere Medicine Other Chromosomes Fungal Genome Fungal Chromosomal Rearrangements Gene Deletion 030217 neurology & neurosurgery Research Article |
| Zdroj: | eLife, Vol 9 (2020) eLife |
| ISSN: | 2050-084X |
| DOI: | 10.7554/elife.58556 |
| Popis: | Centromeres of Candida albicans form on unique and different DNA sequences but a closely related species, Candida tropicalis, possesses homogenized inverted repeat (HIR)-associated centromeres. To investigate the mechanism of centromere type transition, we improved the fragmented genome assembly and constructed a chromosome-level genome assembly of C. tropicalis by employing PacBio sequencing, chromosome conformation capture sequencing (3C-seq), chromoblot, and genetic analysis of engineered aneuploid strains. Further, we analyzed the 3D genome organization using 3C-seq data, which revealed spatial proximity among the centromeres as well as telomeres of seven chromosomes in C. tropicalis. Intriguingly, we observed evidence of inter-centromeric translocations in the common ancestor of C. albicans and C. tropicalis. Identification of putative centromeres in closely related Candida sojae, Candida viswanathii and Candida parapsilosis indicates loss of ancestral HIR-associated centromeres and establishment of evolutionary new centromeres (ENCs) in C. albicans. We propose that spatial proximity of the homologous centromere DNA sequences facilitated karyotype rearrangements and centromere type transitions in human pathogenic yeasts of the CUG-Ser1 clade. Ministry of Education (MOE) Nanyang Technological University Published version We thank all the members of KS laboratory and AS laboratory for stimulating discussions and critical reading of the manuscript. We acknowledge S Sun and J Heitman for helping with SMRT-seq of C. tropicalis at the PacBio sequencing facility at Duke University. We also thank AIS Khalil for helping with CNAtra software for CNV analysis. Illumina sequencing experiments for the C. sojae genome were performed at Clevergene Biocorp, Bangalore, India. We also thank B Suma for confocal microscopy, JNCASR. KG acknowledges Shyama Prasad Mukherjee Fellowship from Council of Scientific and Industrial Research (CSIR), Govt. of India [07/733 (0181)/2013-EMR-I] and financial assistance from JNCASR. This project is supported by a grant (BT/PR27490/Med/29/1323/2018) from the Department of Biotechnology (DBT), Govt. of India to KS. KS acknowledges TATA innovation fellowship (BT/HRD/35/01/03/2017) and Department of Biotechnology grant in Life Science Research, Education and Training at JNCASR (BT/INF/22/SP27679/2018). Intramural funding from JNCASR is acknowledged. This work is also supported by Nanyang Technological University’s Nanyang Assistant Professorship grant and Singapore Ministry of Education Academic Research Fund Tier 1 grant [RG39/18] to AS. |
| Databáze: | OpenAIRE |
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