"The eubacterial phylogeny based on translational apparatus proteins"

Brochier C., Bapteste E., Moreira D, Philippe H.
Trends Genet. 2002 Jan;18(1):1-5



Data sets:

The files of aligned sequences that have been used in this study can be downloaded here in PHYLIP format (don't forget to hold down SHIFT while clicking on the link):

Efg, Efp, Efts, Eftu, Fmt, Glna, Glnb, Glnc, Hpt, If-1, If-2, If-3, Ipp, Ksga, Npt, Pdf, Rba, Rf1, Rf2, Rfr, rpl1, rpl2, rpl3, rpl4, rpl5, rpl6, rpl7, rpl9, rpl10, rpl11, rpl13, rpl14, rpl15, rpl16, rpl17, rpl18, rpl19, rpl20, rpl21, rpl22, rpl23, rpl24, rpl27, rpl28, rpl29, rpl30, rpl31, rpl32, rpl33, rpl34, rpl35, rpl36, rps2, rps3, rps4, rps5, rps6, rps7, rps8, rps9, rps10, rps11, rps12, rps13, rps14, rps15, rps16, rps17, rps18, rps19, rps20, rps21, sp2, Trmd, Trua, Trub.
all

    tRNA synthetases
Ala, Arg, Asp, Cys, Glu, Gly, His, Iso, Leu, Lys, Met, Phe, Pro, Ser, Thr, Try, Tyr, Val.
all

    The corresponding trees are also available:

Efg, Efp, Efts, Eftu, Fmt, glna, glnb, glnc, hpt, If-1, If-2, If-3, Ipp, Ksga, Npt, Pdfa, Pdfb, Rba, Rf1, Rf2, Rfr, rpl1, rpl2, rpl3, rpl4, rpl5, rpl6, rpl7, rpl9, rpl10, rpl11, rpl13, rpl14, rpl15, rpl16, rpl17, rpl18, rpl19, rpl20, rpl21, rpl22, rpl23, rpl24, rpl27, rpl28a, rpl28a, rpl29, rpl30, rpl31a, rpl31b, rpl32, rpl33a, rpl33b, rpl34, rpl35, rpl36a, rpl36b, rps2, rps3, rps4, rps5, rps6, rps7, rps8, rps9, rps10, rps11, rps12, rps13, rps14a, rps14b, rps15, rps16, rps17, rps18, rps19, rps20, rps21, sp2, Trmd, Trua, Trub.
all

    tRNA synthetases
Ala, Arg, Asp, Cys1, Cys2, Glu1, Glu2, Gly, His1, His2, Iso1, Iso2, Leu, Lys, Met, Phe, Pro, Ser1, Ser2, Thr1, Thr2, Try1, Try2, Tyr1, Tyr2, Val.
all
(ML trees : star decomposition + local rearrangement)

Fusions:

    P1 : 57 genes - 8857 positions. (ML tree : Tree_p1)
    P2 : 44 genes - 6436 positions. (ML tree : Tree_p2)
    P3 : 13 genes - 2422 positions. (ML tree : Tree_p3)
    P4 : 39 genes - 11108 positions. (NJ tree : Tree_p4)

    R : RNAr 16 S +RNAr 23 S : 3704 positions (ML tree : Tree_r).

Figures:

    Figure 1: Fusion P1 and RNAr R trees figure1
    Figure 2: PCA analysis figure2

Suplementary material and methods:

    MaterialAndMethods
    liste_genes

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