TABLE 4.

DNA sequences of 70 PCR-DGGE-selected Gigaspora clones and two DGGE bands showing alignment of 24 parsimonious informative and two uninformative positions in the V9 18S rDNA region

Species and clone code(s) (accession no.)aPosition in alignmentb
00001111222222222222222223
57771479366777777788889990
50164482456034568905681890
G. gigantea A1* UFLA872; B1* UFLA872 C C G C C C T A T C G C C G C g t G G C C C G T A C
G. decipiens 4; G. margarita M5, M6*, M7 (CNPAB1), T2 (CNPAB16), 7*, 8, 15* (BEG34), DGGE b2 . . . . . . . G . . . . C G A g t G . . T . . . . T
G. margarita F22, F44 (CNPAB1), T3 (CNPAB16) T . . . . . . G . . . . C G A g t G . . T . . . . T
G. margarita M9 (CNPAB1), T5 (CNPAB16), DGGE b1 . . . . . . . G . T . . C G A g t G . . T . . . . T
G. margarita 1, 21 (BEG34) . . . . . . . G . . . . C G A g t G . T T . A . . T
G. decipiens 2*; G. margarita 2, 10, 14 (BEG34) . . . . . . . G . . . . C G A g t G . . . . . . . T
G. decipiens 9; G. margarita M18 (CNPAB1), 5, 20 (BEG34) . . . . . . . G . . . . T G A g t G . . T . . . . T
G. margarita M8* (CNPAB1) . . A . . . . G . . . . T G A g t G . . T . . . . T
G. albida 13; G. candida C13, C17*; G. ramisporophora GP18 . . . . . T . G . . . . T A A g t G . . T . . C T T
G. albida 25* . . . . . T . G C . . . T A A g t G . . T . . C T T
G. ramisporophora GP16-GP11, GP22 . . . . . T T . G . . . T A A g t G A C T . . C T T
G. ramisporophora GP27, GP49 . T . . . T . G . . . T T A A g t G . . T . A C T T
G. rosea GenBank X58726 . . . . . T . G . . . . T A A g t G . . T . . C T .
G. albida 17; G. candida C4 . . . T . T . G . T . . T A A g t G . . T . . C T T
G. rosea R14, R16 . . A . . T . . . . . . T A A g t G . . T . . C T T
G. ramisporophora GP44 . . . . . T . G . . . . T A A g t G . . T . . C C T
G. albida Genbank Z14009 . . . . . T . G . . . . T A A g t G . . T . . C . .
G. ramisporophora GP14 . . . . . T . G . . . . T G A g t G . . T . . C T T
G. albida 14; G. candida b4, C3, C12, C14b, C16 . . . . . T . G . . . . T A G g t T . . T . . . . .
G. ramisporophora 16-1, 16-2 . . . . T T . G . . . . T A T g t T . . T . . . . .
G. ramisporophora GP33; G. rosea E2, R13, R15 . . . . . T . G . . . . T A T g t T . . T . . . . .
G. albida 19*, 31; G. candida C1, C14, C18, G1 . . . . . T . G . . A T T A T g t T . . T . . . . .
G. rosea R19 . . . . . T . G C . . . T A T g t T . . T . . . . .
G. gigantea 15, VA105C . . . . . T . G . . . . T A A g t T . . T T . . . .
G. gigantea 19, VA105C . . . . . T . G . . . . T A A g t T . . T . . . . .
G. gigantea 3*, 7*, 26*, VA105C . . . . . T . G . . . . T G T g t T . . . . . . . .
G. gigantea 10, VA105C . . . . . T . G . . . . T G T g t T . . T T . . . .
G. gigantea 6, VA105C . . . . . T . G . . . . T T A g t T . . T . . . . .
G. gigantea 20*, GenBank Z14010 * . . . . . T . G . . . . T G A g t T . . T . . . . .
  • a Different clones in the same line have 100% DNA sequence similarity with one or more clones in the same line. Clones in the same line followed by * have less than 100% similarity with other clones in the same line. With those clones, the mutations found were not parsimoniously informative. Accession numbers not specified in the table are G. albidaBR607A , G. candidaBEG17 , G. decipiensW3516 , G. ramisporophoraCNPAB22 , and G. roseaBEG9 .

  • b Position 1 starts at the 5′ end of the primer NS7, according to the alignment provided at the European Bioinformatics Institute (EMBL-EBI) website (http://www.ebi.ac.uk/webin-align/webin_align_listali.html , alignment ALIGN_000606). Dots indicate bases identical to the corresponding base in the sequence on the first line, except within the DNA signatures of Bago et al. (3), in which all bases are shown, with divergent bases in bold type. The GT characters in lower case are not parsimoniously informative but are shown because they are part of the DNA signature proposed by Bago et al. (3) (underlined). The line spaces in the table separate the major clades obtained by phylogenetic analysis.