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Genes 2017, 8(11), 318; doi:10.3390/genes8110318

Next Generation Sequencing of Chromosome-Specific Libraries Sheds Light on Genome Evolution in Paleotetraploid Sterlet (Acipenser ruthenus)

1
Institute of Molecular and Cellular Biology Siberian Branch of the Russian Academy of Sciences, 630090 Novosibirsk, Russia
2
Synthetic Biological Unit, Novosibirsk State University, 630090 Novosibirsk, Russia
*
Author to whom correspondence should be addressed.
Received: 20 September 2017 / Revised: 23 October 2017 / Accepted: 31 October 2017 / Published: 10 November 2017
(This article belongs to the Special Issue Chromosomal Evolution)
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Abstract

Several whole genome duplication (WGD) events followed by rediploidization took place in the evolutionary history of vertebrates. Acipenserids represent a convenient model group for investigation of the consequences of WGD as their representatives underwent additional WGD events in different lineages resulting in ploidy level variation between species, and these processes are still ongoing. Earlier, we obtained a set of sterlet (Acipenser ruthenus) chromosome-specific libraries by microdissection and revealed that they painted two or four pairs of whole sterlet chromosomes, as well as additional chromosomal regions, depending on rediploidization status and chromosomal rearrangements after genome duplication. In this study, we employed next generation sequencing to estimate the content of libraries derived from different paralogous chromosomes of sterlet. For this purpose, we aligned the obtained reads to the spotted gar (Lepisosteus oculatus) reference genome to reveal syntenic regions between these two species having diverged 360 Mya. We also showed that the approach is effective for synteny prediction at various evolutionary distances and allows one to clearly distinguish paralogous chromosomes in polyploid genomes. We postulated that after the acipenserid-specific WGD sterlet karyotype underwent multiple interchromosomal rearrangements, but different chromosomes were involved in this process unequally. View Full-Text
Keywords: sturgeon; spotted gar; paralog chromosomes; whole genome duplication; synteny; fluorescence in situ hybridization; high-throughput sequencing sturgeon; spotted gar; paralog chromosomes; whole genome duplication; synteny; fluorescence in situ hybridization; high-throughput sequencing
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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MDPI and ACS Style

Andreyushkova, D.A.; Makunin, A.I.; Beklemisheva, V.R.; Romanenko, S.A.; Druzhkova, A.S.; Biltueva, L.B.; Serdyukova, N.A.; Graphodatsky, A.S.; Trifonov, V.A. Next Generation Sequencing of Chromosome-Specific Libraries Sheds Light on Genome Evolution in Paleotetraploid Sterlet (Acipenser ruthenus). Genes 2017, 8, 318.

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