Introducing intron locus cox1i624 for phylogenetic analyses in Bryophytes: on the issue of Takakia as sister genus to all other extant mosses.
Liverworts are well supported as the sister group to all other land plants (embryophytes) by molecular data. Observations strongly supporting this earliest dichotomy in embryophyte evolution are the strikingly different introns occurring in the mitochondrial DNAs of liverworts versus non-liverwort embryophytes (NLE), including the mosses. A final conclusion on the most basal lineages of mosses, for which genera such as Sphagnum and Takakia are the most likely candidates, is lacking. We have now investigated cox1i624, a mitochondrial group I intron conserved between the moss Physcomitrella patens and the liverwort Marchantia polymorpha. Focusing on a sampling of liverwort and moss genera, which had previously been identified as early branching taxa in their respective clades, we find that group I intron cox1i624 is universally conserved in all 33 mosses and 11 liverworts investigated. The group I intron core secondary structure is well conserved between the two ancient land plant clades. However, whereas dramatic size reductions are seen in the moss phylogeny, exactly the opposite is observed for liverworts. The cox1i624g1 locus was used for phylogenetic tree reconstruction also in combination with data sets of nad5i753g1 as well as chloroplast loci rbcL and rps4. The phylogenetic analyses revealed (i) very good support for the Treubiopsida as sister clade to all other liverworts, (ii) a sister group relationship of the nematodontous Tetraphidopsida and Polytrichopsida and (iii) two rivalling hypotheses about the basal-most moss genus with mitochondrial loci suggesting an isolated Takakia as sister to all other mosses and chloroplast loci indicating a Takakia-Sphagnum clade.
Volkmar
Ute
U
IZMB-Institut für Zelluläre und Molekulare Botanik, Abt. Molekulare Evolution, Universität Bonn, Kirschallee 1, Bonn, Germany. ute.volkmar@uni-bonn.de
Knoop
Volker
V
D001483:Base Sequence; D001499:Bayes Theorem; D019068:Bryopsida / Q000235:genetics*; D017124:Conserved Sequence; D004272:DNA, Mitochondrial / Q000235:genetics; D018744:DNA, Plant / Q000235:genetics*; D003576:Electron Transport Complex IV / Q000235:genetics*; D007438:Introns; D047008:Marchantia / Q000235:genetics*; D009690:Nucleic Acid Conformation; D010802:Phylogeny
D004272:DNA, Mitochondrial; D018744:DNA, Plant; D003576:Electron Transport Complex IV
J Mol Biol. 1990 Dec 5;216(3):585-610
2258934
Nature. 1998 Aug 13;394(6694):671-4
9716129
Plant Biol (Stuttg). 2004 Sep;6(5):545-54
15375725
Nucleic Acids Res. 1993 Mar 11;21(5):1297-305
7681945
Science. 2001 Dec 14;294(5550):2351-3
11743201
Mol Phylogenet Evol. 2001 Jan;18(1):117-26
11161748
Mol Biol Evol. 2005 Jan;22(1):117-25
15356283
Syst Biol. 2004 Feb;53(1):47-67
14965900
Bioinformatics. 2003 Aug 12;19(12):1572-4
12912839
Mol Biol Evol. 2007 Aug;24(8):1596-9
17488738
Mol Phylogenet Evol. 2010 Feb;54(2):417-26
19853052
Mol Genet Genomics. 2007 Oct;278(4):393-402
17593393
Syst Biol. 2004 Oct;53(5):793-808
15545256
J Mol Evol. 2008 Jun;66(6):621-9
18488263
Nat Struct Biol. 1994 May;1(5):273-80
7545072
Mol Phylogenet Evol. 2004 Jul;32(1):246-63
15186811
BMC Evol Biol. 2004 Jun 28;4:18
15222900
Proc Natl Acad Sci U S A. 2006 Oct 17;103(42):15511-6
17030812
Mol Genet Genomics. 2001 Dec;266(4):608-13
11810232
Mol Phylogenet Evol. 2004 Jun;31(3):915-28
15120390
Mol Biol Evol. 2007 Mar;24(3):699-709
17175527
J Mol Biol. 1992 Jan 5;223(1):1-7
1731062
J Mol Evol. 2009 Jun;68(6):665-78
19475442
Am J Bot. 1997 Oct;84(10):1337
21708543
Mol Biol Evol. 2007 Apr;24(4):1068-74
17283365