Research output: Contribution to journal › Article › peer-review
Next generation sequencing of chromosome-specific libraries sheds light on genome evolution in paleotetraploid sterlet (Acipenser ruthenus). / Andreyushkova, Daria A.; Makunin, Alexey I.; Beklemisheva, Violetta R. et al.
In: Genes, Vol. 8, No. 11, 318, 10.11.2017.Research output: Contribution to journal › Article › peer-review
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TY - JOUR
T1 - Next generation sequencing of chromosome-specific libraries sheds light on genome evolution in paleotetraploid sterlet (Acipenser ruthenus)
AU - Andreyushkova, Daria A.
AU - Makunin, Alexey I.
AU - Beklemisheva, Violetta R.
AU - Romanenko, Svetlana A.
AU - Druzhkova, Anna S.
AU - Biltueva, Larisa S.
AU - Serdyukova, Natalya A.
AU - Graphodatsky, Alexander S.
AU - Trifonov, Vladimir A.
N1 - Publisher Copyright: © 2017 by the authors. Licensee MDPI, Basel, Switzerland.
PY - 2017/11/10
Y1 - 2017/11/10
N2 - 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.
AB - 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.
KW - Fluorescence in situ hybridization
KW - High-throughput sequencing
KW - Paralog chromosomes
KW - Spotted gar
KW - Sturgeon
KW - Synteny
KW - Whole genome duplication
KW - paralog chromosomes
KW - ZEBRAFISH
KW - EVENTS
KW - FUSION
KW - STURGEON ACIPENSER
KW - spotted gar
KW - whole genome duplication
KW - sturgeon
KW - synteny
KW - fluorescence in situ hybridization
KW - DYNAMICS
KW - KARYOTYPE EVOLUTION
KW - MAP
KW - high-throughput sequencing
KW - PLASTICITY
KW - AGE
UR - http://www.scopus.com/inward/record.url?scp=85034079046&partnerID=8YFLogxK
U2 - 10.3390/genes8110318
DO - 10.3390/genes8110318
M3 - Article
C2 - 29125582
AN - SCOPUS:85034079046
VL - 8
JO - Genes
JF - Genes
SN - 2073-4425
IS - 11
M1 - 318
ER -
ID: 9697312