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Data about molecular phylogeny of arbuscular mycorrhizal fungi (AMF)
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EBI WWW server (alignments in EMBL and CLUSTAL W 1.8 format): ftp://ftp.ebi.ac.uk/pub/databases/embl/align/
Glomeromycota rRNA genes - the diversity of myths? Schüßler A, Schwarzott D, Walker C (2003) Mycorrhiza 13: 233-236 Abstract
Supplementary material and some information on contaminants & problematic AMF rDNA sequences are shown at the 'contaminant problems' pages
A list of Glomeromycota rRNA gene sequences in the EMBL database (02.07.2003).
Search parameters were: Glomeromycota; rRNA; sequence length >1300bp
A new fungal phylum, the Glomeromycota : phylogeny and evolution. Schüßler A, Schwarzott D, Walker C (2001). Mycological Research 105: 1413-1421 Abstract
Alignment of 56 AMF sequences, Mortierella and Endogone as outgroup, with longest mask for sites used in the analyses shown (shorter sets were also analysed):
EMBL-format: ALIGN_000208
PHYLIP-format: PHYLIP_000208
PAUP-format: PAUP_000208
Glomus, the largest genus of the arbuscular mycorrhizal fungi (Glomales), is non-monophyletic. Schwarzott D, Walker C, Schüßler A (2001). Molecular Phylogenetics and Evolution 21: 190-197 Abstract
Alignment of 56 AMF sequences, Mortierella and Endogone as outgroup, with longest mask for sites used in the analyses shown (shorter sets were also analysed):
EMBL-format: ALIGN_000124
PHYLIP-format: PHYLIP_000124
PAUP-format: PAUP_000124
Table of sequences used
Analysis of partial Glomales SSU rRNA genes: implications for primer design and phylogeny. Schüßler A, Gehrig H, Schwarzott D, Walker C (2001). Mycological Research 105: 5-15 Abstract
Alignment of 88 AMF sequences, Blastocladiella as outgroup, in PHYLIP interleaved format: ALIGNMENT
Table: New AMF sequences published in Schüßler et al. (2001):
species |
accession no. |
culture |
culture no. |
voucher |
provider |
DNA-clone no. |
Acaulospora laevis |
Y17633 |
WUM46 |
Att896-8 |
W3107 |
Walker |
pWD95-1-4 |
A.trappei (1) |
Y17634 |
|
Att186-1 |
W3179 |
Walker |
pWD103-3-8 |
Geosiphon pyriforme (1) |
Y17831 |
GEO1 |
|
|
Schüßler |
pTR17-2 |
Ge.pyriforme (2) |
AJ132665 |
GEO1 |
|
|
Schüßler |
pTR17-6 |
Ge.pyriforme (3) |
Y15904 |
GEO1 |
|
|
Schüßler |
pHG-Geo1Aa |
Ge.pyriforme (4) |
Y15905 |
GEO1 |
|
|
Schüßler |
pHG-Geo1Ba |
Ge.pyriforme (5) |
AJ276074 |
GEO1 |
|
|
Schüßler |
pHG-Geo1Ca |
Gigaspora candida |
AJ276091 |
BEG17 |
Att26-19 |
W3292 |
BEG/INRA |
pWD131-7 |
Gi.margarita (1) |
Y17646 |
BEG34 |
|
|
BEG/INRA |
pTR28-1a |
Gi. aff. margarita (2) |
AJ276090 |
|
Att26-19 |
W2992 |
Walker |
pWD143-12 |
Gi.rosea (1) |
AJ132663 |
BEG9 |
|
|
BEG/INRA |
pTR26-10a |
Gi.rosea (2) |
AJ132662 |
BEG9 |
|
|
BEG/INRA |
pTR26-7 |
Gi.rosea (3) |
Y17647 |
BEG9 |
|
|
BEG/INRA |
pTR26-6 |
Glomus caledonium (1) |
Y17653 |
BEG15 |
|
|
BEG/INRA |
pKL10-2 |
G.caledonium (2) |
Y17635 |
BEG20 |
Att263-15 |
W3294 |
Walker |
pWD135-1 |
G.claroideum (1) |
Y17636 |
BEG14 |
|
|
BEG/INRA |
pGCL-1 |
G.claroideum (2) |
AJ276075 |
BEG14 |
|
|
BEG/INRA |
pKL2-9a |
G.claroideum (3) |
Y17642 |
BEG23 |
|
|
BEG/INRA |
pTR5-5 |
G.claroideum (4) |
AJ276080 |
BEG23 |
|
|
BEG/INRA |
pKL14-4a |
G.claroideum (5) |
Y17641 |
BEG31 |
Att79-3 |
W1843 |
Walker |
pKL4-1 |
G.claroideum (6) |
AJ276079 |
BEG31 |
Att79-3 |
W1843 |
Walker |
pKL4-2 |
G.clarum (1) |
AJ276084 |
BR147B-8 |
Att72-1 |
W3163 |
INVAM |
pWD125-1 |
G.clarum (2) |
AJ276083 |
|
Att672-13 |
W3161 |
Walker |
pWD116-1-2 |
G.clarum (3) |
Y17638 |
FL879-3 |
|
INVAM |
pTR31-11 |
|
G.coronatum (1) |
Y17637 |
BEG22 |
|
|
BEG/INRA |
pTR27B-10 |
G.coronatum (2) |
AJ276086 |
COG1 |
Att143-5 |
W3153 |
Walker |
pWD93-2-1 |
G.etunicatum (1) |
Y17639 |
UT316-8 |
Att678-4 |
W3093 |
INVAM |
pWD106-3-2 |
G.etunicatum (2) |
Y17644 |
|
Att382-16 |
W2423 |
Walker |
pASGE-10 |
G.etunicatum (3) |
AJ276076 |
|
Att382-16 |
W2423 |
Walker |
pKL6 |
G.fasciculatum |
Y17640 |
BEG53 |
|
|
BEG/INRA |
pKL5-3a |
G.fragilistratum |
AJ276085 |
EX-Type |
Att112-6 |
W3238 |
Walker |
pWD114-3-3 |
G.geosporum (1) |
Y17643 |
BEG11 |
|
|
BEG/INRA |
pTR12C-8 |
G.geosporum (2) |
AJ132664 |
BEG11 |
|
|
BEG/INRA |
pTR12B-6a |
G.geosporum (3) |
AJ245637 |
BEG11 |
|
|
BEG/INRA |
pKL11-1a |
G.lamellosum |
AJ276087 |
EX-Holotype |
Att244-13 |
W3160 |
Walker |
pWD100-2-6 |
G.luteum (1) |
Y17645 |
SA101-3 |
|
|
INVAM |
pKL12-1 |
G.luteum (2) |
AJ276089 |
SA101-3 |
Att676-0 |
W3184 |
INVAM |
pWD141-1 |
G.manihotis |
Y17648 |
|
Att575-9 |
W3224 |
Walker |
pWD113-4-1 |
G.occultum (1) |
AJ276082 |
IA702-3 |
Att677-3 |
W3091 |
INVAM |
pWD117-1-1 |
G.occultum (2) |
AJ276081 |
IA702-3 |
Att677-4 |
W3166 |
INVAM |
pWD108-2-1 |
G.spurcum (1) |
Y17649 |
|
Att246-4 |
W2396 |
Walker |
pKL1-1 |
G.spurcum (2) |
Y17650 |
|
Att246-4 |
W2396 |
Walker |
pHG-17 |
G.spurcum (3) |
AJ276078 |
|
Att246-4 |
W2396 |
Walker |
pKL1-3a |
G.spurcum (4) |
AJ276077 |
Ex-Type |
Att246-4 |
W3239 |
Walker |
pWD115-1-9 |
G.versiforme (1) |
Y17651 |
BEG47 |
HC/F-E01 |
|
Bianciotto |
pTR15-B6a |
G.versiforme (2) |
AJ132666 |
BEG47 |
|
|
BEG/INRA |
pTR29-9 |
G.versiforme (3) |
AJ276088 |
|
Att475-21 |
W3221 |
Walker |
pWD111-2-1 |
G.viscosum |
Y17652 |
BEG27 |
Att179-8 |
W3207 |
Walker |
pWD107-1-2 |
Scutellospora gilmorei |
AJ276094 |
|
Att590-1 |
W3085 |
Walker |
pWD140-3 |
S.aurigloba (1) |
AJ276092 |
WUM53 |
Att475-21 |
W3121 |
Walker |
pWD66-5 |
S.aurigloba (2) |
AJ276093 |
WUM53 |
Att475-21 |
W3121 |
Walker |
pWD66-26 |
Glomales SSU rRNA gene diversity. Schüßler A (1999). New Phytologist 144: 205-207 Abstract
Alignment of 23 species, including secondary structure markers, primer sites in small letters, in PHYLIP interleaved format: ALIGNMENT
Table: accession numbers / species used (Endogone was used as outgroup):
SPECIES |
STRAIN OR CULTURE |
ACCESSION |
Endogone pisiformis |
strain CRBF#0001 |
X58724 |
Geosiphon pyriforme |
GM25 |
X86686 |
A. gerdemannii 1 |
- |
AB015052 |
A. gerdemannii 2 |
NC176 |
AJ006466 |
E. columbiana |
FL356 |
Z14006 |
E. contigua |
WV201 |
Z14011 |
Gi. margarita |
DAOM194757 |
X58726 |
Gi. albida |
FL927 |
Z14009 |
Gi. gigantea |
WV932 |
Z14010 |
S. heterogama 1 |
BR154-5 |
U36593 |
S. heterogama 2 |
WV858B |
Z14013 |
S. pellucida |
WV873 |
Z14012 |
S. castanea |
BEG1 |
AF038590 |
A. spinosa |
WV860 |
Z14004 |
A. rugosa |
WV949 |
Z14005 |
G. etunicatum |
UT316A |
Z14008 |
G. sp. SA101 |
SA101 |
U36591 |
G. sp. BR212 |
BR212 |
U36592 |
G. versiforme |
HC/F-E01(=BEG47) |
X6687 |
G. manihotis |
FL4879-2 |
U36590 |
G. intraradices |
DAOM197198 |
X58725 |
G. vesiculiferum |
- |
L20824 |
G. mosseae |
FL156B |
Z14007 |