2. changing species names - amazon s3 · cbs - knaw fungal biodiversity centre - clinical and...

CBS - KNAW Fungal Biodiversity Centre - Clinical and Extremophilic Fungi CBS - KNAW Fungal Biodiversity Centre - Clinical and Extremophilic Fungi

2. Changing species names

Sporotrichosis by Sporothrix


Lymphocutaneous Disseminated

Fixed Anderson Rodrigues

Yu Zhang


Sporotrichosis epidemics in Brazil

0

500

1000

1500

2000

2500

1996 1998 2000 2002 2004 2006 2008 2010


Sporothrix brasiliensis: zoonotic transmission by fighting stray cats

LIZ600 EcoRI-AC + MseI-A

100908070605040302010


CBS 125438

CBS 129719

CBS 132923

CBS 129718

CBS 129720

CBS 130116

CBS 129724

CBS 129721

CBS 129723

CBS 132925

CBS 129722

CBS 292.55

CBS 130117

CBS 120340

CBS 130105

CBS 132922

CBS 130115

CBS 130104

CBS 340.35

CBS 125601

CBS 129717

CBS 937.72

CBS 132966

CBS 132977

CBS 132975

CBS 132981

CBS 132979

CBS 132980

CBS 132961

CBS 132982

CBS 132968

CBS 132973

CBS 132964

CBS 132983

CBS 130097

CBS 130100

CBS 132969

CBS 130111

CBS 132926

CBS 130099

CBS 132976

CBS 130098

CBS 132962

CBS 132963

CBS 356.29

CBS 132974

CBS 132970

CBS 132971

CBS 132972

CBS 444.67

CBS 117842

CBS 117440

CBS 119145

CBS 130103

CBS 133002

CBS 133003

CBS 133001

CBS 133000

CBS 132999

CBS 132997

CBS 130114

CBS 130113

CBS 130101

CBS 130102

CBS 130112

CBS 133012

CBS 133010

CBS 133016

CBS 133017

CBS 120339

CBS 133013

CBS 133015

CBS 133014

CBS 130108

CBS 133005

CBS 130106

CBS 133008

CBS 133018

CBS 133007

CBS 133011

CBS 133006

CBS 133009

CBS 133022

CBS 130110

CBS 132990

CBS 132989

CBS 132995

CBS 132998

CBS 133019

CBS 132991

CBS 132996

CBS 132992

CBS 132993

CBS 130109

CBS 132994

CBS 133021

CBS 132988

CBS 132987

CBS 130107

CBS 132986

CBS 133020

CBS 129725

CBS 133004

CBS 132985

CBS 938.72

CBS 211.61

CBS 359.36

CBS 472.48

CBS 132984

CBS 345.53

CBS 132928

CBS 132927

CBS 132924

CBS 133192

CBS 120342

CBS 120341

CBS 115870

CBS 120256

CBS 118129

CBS 201.53

CBS 101428

Colombia

China

Brazil

China

China

Spain

China

China

China

Brazil

China

UK

Japan

Spain

Spain

Brazil

Spain

Spain

Japan

Colombia

China

South Africa

Brazil

Mexico

Brazil

Brazil

Peru

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Bolivia

Argentina

Brazil

Colombia

Brazil

Peru

Japan

Peru

Brazil

Brazil

Unknown

Brazil

Brazil

Brazil

Brazil

Mozambique

South Africa

South Africa

South Africa

Argentina

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Peru

Peru

Peru

Peru

Peru

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

China

Brazil

Brazil

France

South Africa

Unknown

Unknown

USA

Netherlands

Brazil

Brazil

Brazil

Italy

Mexico

Mexico

South Africa

South Africa

South Africa

South Africa

USA, Maryland

Sporothrix globosa

Sporothrix schenckii

Sporothrix globosa



Sporothrix globosa




Sporothrix globosa


Sporothrix schenckii var. schenckii

Sporothrix globosa

Sporothrix globosa

Sporothrix globosa

Sporothrix globosa

Sporothrix globosa

Sporothrix globosa




Sporothrix schenckii var. luriei

















Sporothrix mexicana
















Sporothrix brasiliensis
























































Sporothrix mexicana

Sporothrix mexicana

Sporothrix globosa


Sporothrix mexicana

Sporothrix mexicana


Sporothrix humicola

Sporothrix humicola



S. globosa global

S. luriei

S. brasiliensis-A Brazil

S. schenckii-C Peru

S. brasiliensis-B Brazil

S. brasiliensis-C Brazil -1

S. schenckii-E global S. schenckii-D global

S. mexicana-A Brazil

S. schenckii-A South America -1

S. schenckii-B Africa -1

S. mexicana-B global

T

T

T

T


100908070605040302010


CBS 125438

CBS 129719

CBS 132923

CBS 129718

CBS 129720

CBS 130116

CBS 129724

CBS 129721

CBS 129723

CBS 132925

CBS 129722

CBS 292.55

CBS 130117

CBS 120340

CBS 130105

CBS 132922

CBS 130115

CBS 130104

CBS 340.35

CBS 125601

CBS 129717

CBS 937.72

CBS 132966

CBS 132977

CBS 132975

CBS 132981

CBS 132979

CBS 132980

CBS 132961

CBS 132982

CBS 132968

CBS 132973

CBS 132964

CBS 132983

CBS 130097

CBS 130100

CBS 132969

CBS 130111

CBS 132926

CBS 130099

CBS 132976

CBS 130098

CBS 132962

CBS 132963

CBS 356.29

CBS 132974

CBS 132970

CBS 132971

CBS 132972

CBS 444.67

CBS 117842

CBS 117440

CBS 119145

CBS 130103

CBS 133002

CBS 133003

CBS 133001

CBS 133000

CBS 132999

CBS 132997

CBS 130114

CBS 130113

CBS 130101

CBS 130102

CBS 130112

CBS 133012

CBS 133010

CBS 133016

CBS 133017

CBS 120339

CBS 133013

CBS 133015

CBS 133014

CBS 130108

CBS 133005

CBS 130106

CBS 133008

CBS 133018

CBS 133007

CBS 133011

CBS 133006

CBS 133009

CBS 133022

CBS 130110

CBS 132990

CBS 132989

CBS 132995

CBS 132998

CBS 133019

CBS 132991

CBS 132996

CBS 132992

CBS 132993

CBS 130109

CBS 132994

CBS 133021

CBS 132988

CBS 132987

CBS 130107

CBS 132986

CBS 133020

CBS 129725

CBS 133004

CBS 132985

CBS 938.72

CBS 211.61

CBS 359.36

CBS 472.48

CBS 132984

CBS 345.53

CBS 132928

CBS 132927

CBS 132924

CBS 133192

CBS 120342

CBS 120341

CBS 115870

CBS 120256

CBS 118129

CBS 201.53

CBS 101428

Colombia

China

Brazil

China

China

Spain

China

China

China

Brazil

China

UK

Japan

Spain

Spain

Brazil

Spain

Spain

Japan

Colombia

China

South Africa

Brazil

Mexico

Brazil

Brazil

Peru

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Bolivia

Argentina

Brazil

Colombia

Brazil

Peru

Japan

Peru

Brazil

Brazil

Unknown

Brazil

Brazil

Brazil

Brazil

Mozambique

South Africa

South Africa

South Africa

Argentina

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Peru

Peru

Peru

Peru

Peru

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

Brazil

China

Brazil

Brazil

France

South Africa

Unknown

Unknown

USA

Netherlands

Brazil

Brazil

Brazil

Italy

Mexico

Mexico

South Africa

South Africa

South Africa

South Africa

USA, Maryland

Sporothrix globosa


Sporothrix globosa



Sporothrix globosa




Sporothrix globosa



Sporothrix globosa

Sporothrix globosa

Sporothrix globosa

Sporothrix globosa

Sporothrix globosa

Sporothrix globosa




Sporothrix schenckii var. luriei

















Sporothrix mexicana








































































Sporothrix mexicana

Sporothrix mexicana

Sporothrix globosa


Sporothrix mexicana

Sporothrix mexicana


Sporothrix humicola

Sporothrix humicola



S. globosa global

S. luriei

S. brasiliensis-A Brazil

S. schenckii-C Peru

S. brasiliensis-B Brazil

S. brasiliensis-C Brazil -1

S. schenckii-E global S. schenckii-D global

S. mexicana-A Brazil

S. schenckii-A South America -1

S. schenckii-B Africa -1

S. mexicana-B global

T

T

T

T

10090807060504030

Sporothrix globosa: global distribution of AFLP types

CBS 125438

CBS 129719

CBS 132923

CBS 129718

CBS 129720

CBS 130116

CBS 129724

CBS 129721

CBS 129723

CBS 132925

CBS 129722

CBS 292.55

CBS 130117

CBS 120340

CBS 130105

CBS 132922

CBS 130115

CBS 130104

CBS 340.35

CBS 125601

CBS 129717

Colombia

China

Brazil

China

China

Spain

China

China

China

Brazil

China

UK

Japan

Spain

Spain

Brazil

Spain

Spain

Japan

Colombia

China


Colombia

Peru

Bolivia

Argentina

Mexico

South Africa

UK France

Netherlands

Italy Germany

Mozambique

Japan

Venezuela Guatemala

USA

Brazil 312

3 5 33

Spain n=15

S.schenckii

S.brasiliensis

S.globosa

S.mexicana

S.luriei

India 12

China 121

1 6

6 1

15

3

13

1

2 2

20 3

2 1

1

1

1 1 2

1

1

1 1


Traditional corn harvest in Jilin Province, China

Jianxin Xia et al. – Chin. J. Mycol. 2009


Frequent occurrence of fixed facial sporotrichosis in Jilin Province, China


Conclusion: molecular systematics provide detailed insight in diversity.

Usefulness depends on the question: - Research - Routine

Morphology, ITS: broad concept matches with classical species A

B

C

D

E


Clinical parameters identical

Multi-gene phylogeny: five species.

ITS

Bensch et al. – Stud. Mycol. 2012

Cladosporium relationship

ACT, TEF1

CBS - KNAW Fungal Biodiversity Centre - Clinical and Extremophilic Fungi

ITS sequence data of Cladosporium, Ubiquitous contaminants in the clinical laboratory

former Cladosporium herbarum

former Cladosporium cladosporioides


ITS Cladosporium

Cladosporium herbarum complex

Cladosporium cladosporioides complex

Susceptibility-2

Susceptibility-1 A

B

C

D

E

Multi-gene phylogeny: five species.

Cladosporium pseudoiridis

Cladosporium subtilissimum

Cladosporium ossifragi

Cladosporium echinulatum

Cladosporium …. (n)

Cladosporium herbarum complex


Sporothrix globosa

Sporothrix globosa

Sporothrix mexicana

Sporothrix luriei

No species complex in Sporothrix

A

B

C

D

E

Diagnostic markers may or may not coincide with taxonomic borderlines

ITS2: Joseph et al. – Nucleic Acids Res 1999


Barcode identifiers selected from highly conserved stems with compensatory mutations versus highly variable loops Heinrichs et al JCM 2013

Species Strain Accession Number

Barcode identifier Position Habitat

Cladophialophora arxii 1

CBS 306.94T

EU103986.1 TTGG ACGGTTTGGTGGAAGGGTGACACCCTTCCGCCCGT CCTAA 400-443 man

Cladophialophora arxii 2

CBS 409.96 EU103987.1 TTGG ACGGTTCGGTGGGGAAGGGGTACACCCTTCCACCCGT CCTAA 399-444 man

Cladophialophora bantiana

CBS 173.52T

EU103989.1 TTGG ACGGTCTGGCGGAAGTGTCGTGCACCCCGCCCCT CCTAA 392-444 man

Cladophialophora carrionii 1

CBS 160.54LT

AF050262.1 TTGG ACGGTTTTGGTCGAGTGTTCTCGACCCCT CCTAA 391-428 man


CBS 163.54 EU137304.1 TTGG ACGGTCTTGGTCGAGTGTTCTCGACCCCT CCTAA 389-426 man


CBS 260.83 EU137292.1 TTGG ACGGTTTTGGTCGAGTGTTCTCGACCCCT CCTAA 389-426 man, skin lesion


FMC.248 AF397181.1 TTGG ACGGTCTTGGTCGAGTGTTCTCGACCCCC CCTAA 411-448 man

Cladophialophora devriesii 1

CBS 147.84T

EU103985.1 TTGG ACGGCTTGGTAGAGTCCCTACCCCT CCTAA 394-427 man

Cladophialophora devriesii 2

IFM 51369 AB091212.1 TTGG ACGGCTTGGTAAATTCCCTACCCCT CCTAA 416-449 -

Cladophialophora aff. devriesii crab

CBS 119710T

FJ385275.1 (CBS118720)

TTGG ACGGCTTGGTAGAGAGTCTCTACCCCT CCTAA 394-429 crab

Cladophialophora emmonsii 1

CBS 979.96T

EU103996.1 TTGG ACGGCCTGGCGGAGTGCACGACACTCTGCCCCT CCTAA 389-430 man, subcutaneous lesion right forearm

Cladophialophora emmonsii 2

CBS 640.96 EU103995.1 TTGG ACGGCCTGGCGGAGTGCACGACACCCTGCCCCT CCTAA 349-390 cat, subcutaneous lesion

Cladophialophora immunda 1

CBS 834.96T

EU137318.1 TTGG ACGGTTTGGTAGGGCGCCTACCCCT CCTAA 396-429 man

Cladophialophora immunda 2

CBS 102227

EU137319.1 TTGG ACGGTTTGGTAGAGTGCCTACCCCT CCTAA 399-432 Syagrum romanzoffianum, stem

Cladophialophora modesta

CBS 985.96T

GU225939.1 TTGG AATCTCAGTTGAGTGATCAACTGGTT CCCAA 383-416 man

Cladophialophora mycetomatis 1

CBS 122637T

FJ385276.1 TTGG ACGGTTTGGTCGACGACACCCGACCCCT CCCAA 380-416 man

Cladophialophora mycetomatis 2

CBS 454.82 EU137293.1 TTGG ACGGTTTGGTCGACGACATCCGACCCCT CCCAA 399-435 culture contaminant

Cladophialophora psammophila

CBS 110553T

AY857517.1 TTGG ACGGTCTGGCGGAAGTGTCGTGCACGCCGCCCCT CCTAA 398-440 gasolin-polluted soil

Cladophialophora samoensis

CBS 259.83T

EU137291.1 TTGG AGGGTCCCTGGTCGAGGCTCTACCTCGACCT CCTAA 393-432 man, skin lesion

Cladophialophora saturnica

CBS 118724T

EU103984.1 TTGG ACGGCTTGGTAGAGTTCCCTCTACCCT CCTAA 398-433 interdigital, tinea nigra-like skin lesion of 4-year old HIV positive child

Cladophialophora subtilis

CBS 122642T

FJ385273.1 TTGG ACGGCCTTGGTCGCGCACGCGCCGACCCCT CCTAA 387-425 ice tea

Cladophialophora yegresii

CBS 114405T

EU137322.1 TTGG ACGGTTTTGGTCGAGTGTCCCTCGACCCCT CCTAA 394-432 Stenocereus griseus CBS - KNAW Fungal Biodiversity Centre - Clinical and Extremophilic Fungi


Group Medical and Extremophilic Fungi at CBS

2. changing species names - amazon s3 · cbs - knaw fungal biodiversity centre - clinical and...

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