PMID- 29672536
OWN - NLM
STAT- MEDLINE
DCOM- 20180725
LR  - 20181114
IS  - 1932-6203 (Electronic)
IS  - 1932-6203 (Linking)
VI  - 13
IP  - 4
DP  - 2018
TI  - Development of a quantitative pachytene chromosome map and its unification with 
      somatic chromosome and linkage maps of rice (Oryza sativa L.).
PG  - e0195710
LID - 10.1371/journal.pone.0195710 [doi]
LID - e0195710
AB  - A quantitative pachytene chromosome map of rice (Oryza sativa L.) was developed 
      using imaging methods. The map depicts not only distribution patterns of 
      chromomeres specific to pachytene chromosomes, but also the higher order 
      information of chromosomal structures, such as heterochromatin (condensed 
      regions), euchromatin (decondensed regions), the primary constrictions 
      (centromeres), and the secondary constriction (nucleolar organizing regions, 
      NOR). These features were image analyzed and quantitatively mapped onto the map 
      by Chromosome Image Analyzing System ver. 4.0 (CHIAS IV). Correlation between 
      H3K9me2, an epigenetic marker and formation and/or maintenance of 
      heterochromatin, thus was, clearly visualized. Then the pachytene chromosome map 
      was unified with the existing somatic chromosome and linkage maps by physically 
      mapping common DNA markers among them, such as a rice A genome specific tandem 
      repeat sequence (TrsA), 5S and 45S ribosomal RNA genes, five bacterial artificial 
      chromosome (BAC) clones, four P1 bacteriophage artificial chromosome (PAC) clones 
      using multicolor fluorescence in situ hybridization (FISH). Detailed comparison 
      between the locations of the DNA probes on the pachytene chromosomes using 
      multicolor FISH, and the linkage map enabled determination of the chromosome 
      number and short/long arms of individual pachytene chromosomes using the 
      chromosome number and arm assignment designated for the linkage map. As a result, 
      the quantitative pachytene chromosome map was unified with two other major rice 
      chromosome maps representing somatic prometaphase chromosomes and genetic 
      linkages. In conclusion, the unification of the three rice maps serves as an 
      indispensable basic information, not only for an in-depth comparison between 
      genetic and chromosomal data, but also for practical breeding programs.
FAU - Ohmido, Nobuko
AU  - Ohmido N
AUID- ORCID: 0000-0003-1496-6597
AD  - Graduate School of Human Development and Environment, Kobe University, Kobe, 
      Hyogo, Japan.
FAU - Iwata, Aiko
AU  - Iwata A
AD  - Center for Applied Genetic Technologies, University of Georgia, Athens, Georgia, 
      United States of America.
FAU - Kato, Seiji
AU  - Kato S
AD  - Yamanashi Prefectural Agritechnology Center, 1100, Shimoimai, Kai, Yamanashi, 
      Japan.
FAU - Wako, Toshiyuki
AU  - Wako T
AD  - Advanced Analysis Center, National Agriculture and Food Research Organization, 
      Tsukuba, Ibaraki, Japan.
FAU - Fukui, Kiichi
AU  - Fukui K
AD  - Graduate School of Pharmaceutical Sciences, Osaka University, Suita, Osaka, 
      Japan.
LA  - eng
PT  - Comparative Study
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20180419
PL  - United States
TA  - PLoS One
JT  - PloS one
JID - 101285081
RN  - 0 (DNA, Plant)
RN  - 0 (Heterochromatin)
RN  - 0 (Histones)
RN  - 0 (Plant Proteins)
SB  - IM
MH  - Chromosome Mapping/*methods
MH  - Chromosomes, Plant/*genetics/ultrastructure
MH  - DNA, Plant/genetics
MH  - Genetic Linkage
MH  - Heterochromatin/genetics/metabolism
MH  - Histones/metabolism
MH  - In Situ Hybridization, Fluorescence
MH  - Oryza/*genetics/metabolism/ultrastructure
MH  - Pachytene Stage/genetics
MH  - Physical Chromosome Mapping/methods
MH  - Plant Proteins/metabolism
MH  - Transcription, Genetic
PMC - PMC5908146
COIS- Competing Interests: The authors have declared that no competing interests exist.
EDAT- 2018/04/20 06:00
MHDA- 2018/07/26 06:00
PMCR- 2018/04/19
CRDT- 2018/04/20 06:00
PHST- 2017/12/19 00:00 [received]
PHST- 2018/03/28 00:00 [accepted]
PHST- 2018/04/20 06:00 [entrez]
PHST- 2018/04/20 06:00 [pubmed]
PHST- 2018/07/26 06:00 [medline]
PHST- 2018/04/19 00:00 [pmc-release]
AID - PONE-D-17-44290 [pii]
AID - 10.1371/journal.pone.0195710 [doi]
PST - epublish
SO  - PLoS One. 2018 Apr 19;13(4):e0195710. doi: 10.1371/journal.pone.0195710. 
      eCollection 2018.