title: Molecular adaptation of rbcL in the heterophyllous aquatic plant Potamogeton.
abstract: BACKGROUND
  Heterophyllous aquatic plants show marked phenotypic plasticity. They adapt to environmental changes by producing different leaf types: submerged, floating and terrestrial leaves. By contrast, homophyllous plants produce only submerged leaves and grow entirely underwater. Heterophylly and submerged homophylly evolved under selective pressure modifying the species-specific optima for photosynthesis, but little is known about the evolutionary outcome of habit. Recent evolutionary analyses suggested that rbcL, a chloroplast gene that encodes a catalytic subunit of RuBisCO, evolves under positive selection in most land plant lineages. To examine the adaptive evolutionary process linked to heterophylly or homophylly, we analyzed positive selection in the rbcL sequences of ecologically diverse aquatic plants, Japanese Potamogeton.
  
  
  RESULTS
  Phylogenetic and maximum likelihood analyses of codon substitution models indicated that Potamogeton rbcL has evolved under positive Darwinian selection. The positive selection has operated specifically in heterophyllous lineages but not in homophyllous ones in the branch-site models. This suggests that the selective pressure on this chloroplast gene was higher for heterophyllous lineages than for homophyllous lineages. The replacement of 12 amino acids occurred at structurally important sites in the quaternary structure of RbcL, two of which (residue 225 and 281) were identified as potentially under positive selection.
  
  
  CONCLUSIONS
  Our analysis did not show an exact relationship between the amino acid replacements and heterophylly or homophylly but revealed that lineage-specific positive selection acted on the Potamogeton rbcL. The contrasting ecological conditions between heterophyllous and homophyllous plants have imposed different selective pressures on the photosynthetic system. The increased amino acid replacement in RbcL may reflect the continuous fine-tuning of RuBisCO under varying ecological conditions.
authors.affiliation: Research Center for Environmental Genomics, Kobe University, Kobe, Hyogo, Japan. iida@kobe-u.ac.jp
authors.forename: Satoko
authors.initials: S
authors.lastname: Iida
authors.forename: Atsuko
authors.initials: A
authors.lastname: Miyagi
authors.forename: Seishiro
authors.initials: S
authors.lastname: Aoki
authors.forename: Motomi
authors.initials: M
authors.lastname: Ito
authors.forename: Yasuro
authors.initials: Y
authors.lastname: Kadono
authors.forename: Keiko
authors.initials: K
authors.lastname: Kosuge
mesh_terms: D017343:Genes, Plant; D016013:Likelihood Functions; D010802:Phylogeny; D031821:Potamogetonaceae / Q000235:genetics*; D012273:Ribulose-Bisphosphate Carboxylase / Q000235:genetics*
chemical_list: C101625:RbcL protein, plastid; D012273:Ribulose-Bisphosphate Carboxylase