PMID- 23071443
OWN - NLM
STAT- MEDLINE
DCOM- 20130322
LR  - 20220316
IS  - 1553-7404 (Electronic)
IS  - 1553-7390 (Print)
IS  - 1553-7390 (Linking)
VI  - 8
IP  - 10
DP  - 2012
TI  - The many landscapes of recombination in Drosophila melanogaster.
PG  - e1002905
LID - 10.1371/journal.pgen.1002905 [doi]
LID - e1002905
AB  - Recombination is a fundamental biological process with profound evolutionary 
      implications. Theory predicts that recombination increases the effectiveness of 
      selection in natural populations. Yet, direct tests of this prediction have been 
      restricted to qualitative trends due to the lack of detailed characterization of 
      recombination rate variation across genomes and within species. The use of 
      imprecise recombination rates can also skew population genetic analyses designed 
      to assess the presence and mode of selection across genomes. Here we report the 
      first integrated high-resolution description of genomic and population variation 
      in recombination, which also distinguishes between the two outcomes of meiotic 
      recombination: crossing over (CO) and gene conversion (GC). We characterized the 
      products of 5,860 female meioses in Drosophila melanogaster by genotyping a total 
      of 139 million informative SNPs and mapped 106,964 recombination events at a 
      resolution down to 2 kilobases. This approach allowed us to generate whole-genome 
      CO and GC maps as well as a detailed description of variation in recombination 
      among individuals of this species. We describe many levels of variation in 
      recombination rates. At a large-scale (100 kb), CO rates exhibit extreme and 
      highly punctuated variation along chromosomes, with hot and coldspots. We also 
      show extensive intra-specific variation in CO landscapes that is associated with 
      hotspots at low frequency in our sample. GC rates are more uniformly distributed 
      across the genome than CO rates and detectable in regions with reduced or absent 
      CO. At a local scale, recombination events are associated with numerous sequence 
      motifs and tend to occur within transcript regions, thus suggesting that 
      chromatin accessibility favors double-strand breaks. All these non-independent 
      layers of variation in recombination across genomes and among individuals need to 
      be taken into account in order to obtain relevant estimates of recombination 
      rates, and should be included in a new generation of population genetic models of 
      the interaction between selection and linkage.
FAU - Comeron, Josep M
AU  - Comeron JM
AD  - Department of Biology, University of Iowa, Iowa City, Iowa, USA. 
      josep-comeron@uiowa.edu
FAU - Ratnappan, Ramesh
AU  - Ratnappan R
FAU - Bailin, Samuel
AU  - Bailin S
LA  - eng
GR  - RC2 GM092501/GM/NIGMS NIH HHS/United States
GR  - RC2GM092501/GM/NIGMS NIH HHS/United States
PT  - Journal Article
PT  - Research Support, N.I.H., Extramural
DEP - 20121011
PL  - United States
TA  - PLoS Genet
JT  - PLoS genetics
JID - 101239074
SB  - IM
CIN - Nat Rev Genet. 2012 Dec;13(12):825. PMID: 23150039
MH  - Animals
MH  - Base Sequence
MH  - Chromosomes
MH  - Crossing Over, Genetic
MH  - Drosophila melanogaster/*genetics
MH  - Evolution, Molecular
MH  - Female
MH  - Gene Conversion
MH  - Genome
MH  - Male
MH  - Nucleotide Motifs
MH  - Polymorphism, Genetic
MH  - *Recombination, Genetic
PMC - PMC3469467
COIS- The authors have declared that no competing interests exist.
EDAT- 2012/10/17 06:00
MHDA- 2013/03/23 06:00
PMCR- 2012/10/01
CRDT- 2012/10/17 06:00
PHST- 2012/03/04 00:00 [received]
PHST- 2012/07/02 00:00 [accepted]
PHST- 2012/10/17 06:00 [entrez]
PHST- 2012/10/17 06:00 [pubmed]
PHST- 2013/03/23 06:00 [medline]
PHST- 2012/10/01 00:00 [pmc-release]
AID - PGENETICS-D-12-00570 [pii]
AID - 10.1371/journal.pgen.1002905 [doi]
PST - ppublish
SO  - PLoS Genet. 2012;8(10):e1002905. doi: 10.1371/journal.pgen.1002905. Epub 2012 Oct 
      11.