PMID- 30333010
OWN - NLM
STAT- MEDLINE
DCOM- 20181119
LR  - 20220409
IS  - 1471-2229 (Electronic)
IS  - 1471-2229 (Linking)
VI  - 18
IP  - 1
DP  - 2018 Oct 17
TI  - High-resolution chromosome painting with repetitive and single-copy 
      oligonucleotides in Arachis species identifies structural rearrangements and 
      genome differentiation.
PG  - 240
LID - 10.1186/s12870-018-1468-1 [doi]
LID - 240
AB  - BACKGROUND: Arachis contains 80 species that carry many beneficial genes that can 
      be utilized in the genetic improvement of peanut (Arachis hypogaea L. 
      2n = 4x = 40, genome AABB). Chromosome engineering is a powerful technique by 
      which these genes can be transferred and utilized in cultivated peanut. However, 
      their small chromosomes and insufficient cytological markers have made chromosome 
      identification and studies relating to genome evolution quite difficult. The 
      development of efficient cytological markers or probes is very necessary for both 
      chromosome engineering and genome discrimination in cultivated peanut. RESULTS: A 
      simple and efficient oligonucleotide multiplex probe to distinguish genomes, 
      chromosomes, and chromosomal aberrations of peanut was developed based on eight 
      single-stranded oligonucleotides (SSONs) derived from repetitive sequences. 
      High-resolution karyotypes of 16 Arachis species, two interspecific F(1) hybrids, 
      and one radiation-induced M(1) plant were then developed by fluorescence in situ 
      hybridization (FISH) using oligonucleotide multiplex, 45S and 5S rDNAs, and 
      genomic in situ hybridization (GISH) using total genomic DNA of A. duranensis 
      (2n = 2x = 20, AA) and A. ipaensis (2n = 2x = 20, BB) as probes. Genomes, 
      chromosomes, and aberrations were clearly identifiable in the established 
      karyotypes. All eight cultivars had similar karyotypes, whereas the eight wild 
      species exhibited various chromosomal variations. In addition, a 
      chromosome-specific SSON library was developed based on the single-copy sequence 
      of chromosome 6A of A. duranensis. In combination with repetitive SSONs and rDNA 
      FISH, the single-copy SSON library was applied to identify the corresponding A3 
      chromosome in the A. duranensis karyotype. CONCLUSIONS: The development of 
      repetitive and single-copy SSON probes for FISH and GISH provides useful tools 
      for the differentiation of chromosomes and identification of structural 
      chromosomal rearrangement. It facilitates the development of high-resolution 
      karyotypes and detection of chromosomal variations in Arachis species. To our 
      knowledge, the methodology presented in this study demonstrates for the first 
      time the correlation between a sequenced chromosome region and a cytologically 
      identified chromosome in peanut.
FAU - Du, Pei
AU  - Du P
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
AD  - State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing 
      Agricultural University, Nanjing, 210095, China.
FAU - Li, Lina
AU  - Li L
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Liu, Hua
AU  - Liu H
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Fu, Liuyang
AU  - Fu L
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
AD  - School of Life Sciences, Zhengzhou University, Zhengzhou, 450001, Henan, China.
FAU - Qin, Li
AU  - Qin L
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Zhang, Zhongxin
AU  - Zhang Z
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Cui, Caihong
AU  - Cui C
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Sun, Ziqi
AU  - Sun Z
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Han, Suoyi
AU  - Han S
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Xu, Jing
AU  - Xu J
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Dai, Xiaodong
AU  - Dai X
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Huang, Bingyan
AU  - Huang B
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Dong, Wenzhao
AU  - Dong W
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Tang, Fengshou
AU  - Tang F
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China.
FAU - Zhuang, Lifang
AU  - Zhuang L
AD  - State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing 
      Agricultural University, Nanjing, 210095, China.
FAU - Han, Yonghua
AU  - Han Y
AD  - Jiangsu Key Laboratory of Phylogenomics and Comparative Genomics, School of Life 
      Sciences, Jiangsu Normal University, Xuzhou, 221116, China.
FAU - Qi, Zengjun
AU  - Qi Z
AD  - State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing 
      Agricultural University, Nanjing, 210095, China. zjqi@njau.edu.cn.
FAU - Zhang, Xinyou
AU  - Zhang X
AD  - Industrial Crops Research Institute, Henan Academy of Agricultural Sciences/Key 
      Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan 
      Provincial Key Laboratory for Oil Crops Improvement, Zhengzhou, 450002, Henan, 
      China. haasz@126.com.
LA  - eng
GR  - CARS-13/the China Agriculture Research System/
GR  - S2012-05/the Henan Provincial Agriculture Research System, China/
GR  - 161100111000/the Major Technology Research and Development Program of Henan 
      Province, China/
PT  - Journal Article
DEP - 20181017
PL  - England
TA  - BMC Plant Biol
JT  - BMC plant biology
JID - 100967807
RN  - 0 (DNA, Ribosomal)
RN  - 0 (Molecular Probes)
RN  - 0 (Oligonucleotides)
SB  - IM
MH  - Arachis/*genetics
MH  - Chromosome Painting
MH  - Chromosomes, Plant/*genetics
MH  - DNA, Ribosomal
MH  - *Gene Rearrangement
MH  - Genome, Plant/*genetics
MH  - In Situ Hybridization, Fluorescence
MH  - Karyotyping
MH  - Molecular Probes
MH  - Oligonucleotides
MH  - Repetitive Sequences, Nucleic Acid/genetics
PMC - PMC6192370
OTO - NOTNLM
OT  - Arachis species
OT  - Chromosome painting
OT  - Genomic evolution
OT  - High-resolution karyotype
OT  - Oligonucleotide multiplex
COIS- ETHICS APPROVAL AND CONSENT TO PARTICIPATE: Not applicable. CONSENT FOR 
      PUBLICATION: Not applicable. COMPETING INTERESTS: The authors declare that they 
      have no competing interests. PUBLISHER'S NOTE: Springer Nature remains neutral 
      with regard to jurisdictional claims in published maps and institutional 
      affiliations.
EDAT- 2018/10/20 06:00
MHDA- 2018/11/20 06:00
PMCR- 2018/10/17
CRDT- 2018/10/19 06:00
PHST- 2018/02/05 00:00 [received]
PHST- 2018/10/03 00:00 [accepted]
PHST- 2018/10/19 06:00 [entrez]
PHST- 2018/10/20 06:00 [pubmed]
PHST- 2018/11/20 06:00 [medline]
PHST- 2018/10/17 00:00 [pmc-release]
AID - 10.1186/s12870-018-1468-1 [pii]
AID - 1468 [pii]
AID - 10.1186/s12870-018-1468-1 [doi]
PST - epublish
SO  - BMC Plant Biol. 2018 Oct 17;18(1):240. doi: 10.1186/s12870-018-1468-1.