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Zexi Cai
Comparative karyotype analysis among six Ipomoea species based on two newly identified repetitive sequences
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In: Genome, Vol. 62, No. 4, 04.2019, p. 243-252.
Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review
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TY - JOUR
T1 - Comparative karyotype analysis among six Ipomoea species based on two newly identified repetitive sequences
AU - Sun, Jianying
AU - Yu, Lixuan
AU - Cai, Zexi
AU - Zhang, An
AU - Jin, Weiwei
AU - Han, Yonghua
AU - Li, Zongyun
PY - 2019/4
Y1 - 2019/4
N2 - Sweet potato is one of the most important crops worldwide; however, basic research in this crop is limited. In this study, we aimed to construct a detailed karyotype of six Ipomoea species (hexaploid Ipomoea batatas and five related species, namely, one tetraploid, I. tabascana and four diploids, I. splendor-sylvae, I. trifida, I. tenuissima, and I. × leucantha) and understand the relationship among these species. Two satellite repeats (viz., Itf_1 and Itf_2) were identified from the diploid I. trifida genome sequence using RepeatExplorer on Galaxy. Together with the ribosomal DNA (rDNA), although without distinguishable chromosomes, a detailed karyotype was constructed for the six species. Our results showed a similar karyotype between I. tenuissima and I. × leucantha, indicating their close relationship. The signal distribution pattern of Itf_1, 45S rDNA combination, detected only in I. trifida, I. tabascana, and I. batatas, implied their close relationships. The chromosomes carrying 5S rDNA could be conserved among the six species as they always carried the Itf_2 signals, which generated a similar signal distribution pattern. The results enabled a detailed comparative cytogenetic analysis, providing valuable information to understand the relationship among these species and help assemble the genome sequence of the six Ipomoea species.
AB - Sweet potato is one of the most important crops worldwide; however, basic research in this crop is limited. In this study, we aimed to construct a detailed karyotype of six Ipomoea species (hexaploid Ipomoea batatas and five related species, namely, one tetraploid, I. tabascana and four diploids, I. splendor-sylvae, I. trifida, I. tenuissima, and I. × leucantha) and understand the relationship among these species. Two satellite repeats (viz., Itf_1 and Itf_2) were identified from the diploid I. trifida genome sequence using RepeatExplorer on Galaxy. Together with the ribosomal DNA (rDNA), although without distinguishable chromosomes, a detailed karyotype was constructed for the six species. Our results showed a similar karyotype between I. tenuissima and I. × leucantha, indicating their close relationship. The signal distribution pattern of Itf_1, 45S rDNA combination, detected only in I. trifida, I. tabascana, and I. batatas, implied their close relationships. The chromosomes carrying 5S rDNA could be conserved among the six species as they always carried the Itf_2 signals, which generated a similar signal distribution pattern. The results enabled a detailed comparative cytogenetic analysis, providing valuable information to understand the relationship among these species and help assemble the genome sequence of the six Ipomoea species.
KW - Fluorescence in situ hybridization
KW - Graph-based clustering
KW - Karyotype
KW - Repetitive sequence
KW - Series Batatas
U2 - 10.1139/gen-2018-0169
DO - 10.1139/gen-2018-0169
M3 - Journal article
C2 - 30785785
VL - 62
SP - 243
EP - 252
JO - Genome
JF - Genome
SN - 0831-2796
IS - 4
ER -