PMID- 38062348
OWN - NLM
STAT- MEDLINE
DCOM- 20231216
LR  - 20231216
IS  - 1471-2229 (Electronic)
IS  - 1471-2229 (Linking)
VI  - 23
IP  - 1
DP  - 2023 Dec 8
TI  - Karyotyping of aneuploid and polyploid plants from low coverage whole-genome 
      resequencing.
PG  - 630
LID - 10.1186/s12870-023-04650-9 [doi]
LID - 630
AB  - BACKGROUND: Karyotype, as a basic characteristic of species, provides valuable 
      information for fundamental theoretical research and germplasm resource 
      innovation. However, traditional karyotyping techniques, including fluorescence 
      in situ hybridization (FISH), are challenging and low in efficiency, especially 
      when karyotyping aneuploid and polyploid plants. The use of low coverage 
      whole-genome resequencing (lcWGR) data for karyotyping was explored, but existing 
      methods are complicated and require control samples. RESULTS: In this study, a 
      new protocol for molecular karyotype analysis was provided, which proved to be a 
      simpler, faster, and more accurate method, requiring no control. Notably, our 
      method not only provided the copy number of each chromosome of an individual but 
      also an accurate evaluation of the genomic contribution from its parents. 
      Moreover, we verified the method through FISH and published resequencing data. 
      CONCLUSIONS: This method is of great significance for species evolution analysis, 
      chromosome engineering, crop improvement, and breeding.
CI  - (c) 2023. The Author(s).
FAU - Zhao, Kanglu
AU  - Zhao K
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Bai, Yanbo
AU  - Bai Y
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Zhang, Qingyu
AU  - Zhang Q
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Zhao, Zhen
AU  - Zhao Z
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Cao, Yao
AU  - Cao Y
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Yang, Lu
AU  - Yang L
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Wang, Ni
AU  - Wang N
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Xu, Junxiong
AU  - Xu J
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Wang, Bo
AU  - Wang B
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Wu, Lei
AU  - Wu L
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Gong, Xiufeng
AU  - Gong X
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China.
FAU - Lin, Tuanrong
AU  - Lin T
AD  - Institute of Ulanqab Agricultural and Forestry Sciences, Inner Mongolia, Ulanqab, 
      012000, China.
FAU - Wang, Yufeng
AU  - Wang Y
AD  - Institute of Ulanqab Agricultural and Forestry Sciences, Inner Mongolia, Ulanqab, 
      012000, China.
FAU - Wang, Wei
AU  - Wang W
AD  - Institute of Ulanqab Agricultural and Forestry Sciences, Inner Mongolia, Ulanqab, 
      012000, China.
FAU - Cai, Xingkui
AU  - Cai X
AD  - Key Laboratory of Horticultural Plant Biology, Key Laboratory of Potato Biology 
      and Biotechnology, Ministry of Agriculture and Rural Affairs, College of 
      Horticulture and Forestry Sciences, Ministry of Education, Huazhong Agricultural 
      University, Wuhan, 430070, China.
FAU - Yin, Yuhe
AU  - Yin Y
AD  - Institute of Ulanqab Agricultural and Forestry Sciences, Inner Mongolia, Ulanqab, 
      012000, China.
FAU - Xiong, Zhiyong
AU  - Xiong Z
AD  - Key Laboratory of Herbage and Endemic Crop Biology, Ministry of Education, School 
      of Life Sciences, Inner Mongolia University, Hohhot, 010070, China. 
      xiongzy2003@aliyun.com.
LA  - eng
GR  - 32060503/National Natural Science Foundation of China/
GR  - 32070556/National Natural Science Foundation of China/
PT  - Journal Article
DEP - 20231208
PL  - England
TA  - BMC Plant Biol
JT  - BMC plant biology
JID - 100967807
SB  - IM
MH  - In Situ Hybridization, Fluorescence
MH  - Karyotyping
MH  - *Polyploidy
MH  - Karyotype
MH  - *Aneuploidy
PMC - PMC10704825
OTO - NOTNLM
OT  - Aneuploid
OT  - FISH
OT  - Karyotype
OT  - Polyploid
OT  - Whole-genome resequencing
COIS- The authors declare no competing interests.
EDAT- 2023/12/08 00:42
MHDA- 2023/12/17 09:44
PMCR- 2023/12/08
CRDT- 2023/12/07 23:48
PHST- 2023/08/25 00:00 [received]
PHST- 2023/11/30 00:00 [accepted]
PHST- 2023/12/17 09:44 [medline]
PHST- 2023/12/08 00:42 [pubmed]
PHST- 2023/12/07 23:48 [entrez]
PHST- 2023/12/08 00:00 [pmc-release]
AID - 10.1186/s12870-023-04650-9 [pii]
AID - 4650 [pii]
AID - 10.1186/s12870-023-04650-9 [doi]
PST - epublish
SO  - BMC Plant Biol. 2023 Dec 8;23(1):630. doi: 10.1186/s12870-023-04650-9.