JCM Mail News (2025.07.08)


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RIKEN BioResource Research Center - Japan Collection of Microorganisms
                      JCM Mail News (2025.07.08)
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RIKEN BioResource Research Center - Japan Collection of Microorganisms
(JCM) is pleased to update you with the latest information.

======= Contents =====================================================
- Special topic: Prokaryotic strains contributing proposals of new
                 phyla and kingdoms
- Isolation source category added in the Lists of JCM strains
- Official BRC Bluesky (Social Media) Account Now Open
- Newly cataloged strains (2025.03.01 - 2025.06.30)
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Special topic: Prokaryotic strains contributing proposals of new
               phyla and kingdoms
+---------------------------------------------------------------------
Currently, the International Code of Nomenclature of Prokaryotes
(ICNP) covers the high-level taxonomic ranks "phylum", "kingdom" and
"domain." There are two domains – Bacteria and Archaea – with four
kingdoms formally approved within each domain. One of the four
archaeal kingdoms is Nanobdellati. Our research group previously
reported Nanobdella aerobiophila T (=JCM 33616T), which is the
origin of this kingdom name. In 2024, another archaeal kingdom
Promethearchaeati was validated based on Promethearchaeum syntrophicum
MK-D1T (=JCM 39240T). Meanwhile, in the domain Bacteria, proposals for
new phyla have been recently made one after another, such as the
phylum Minisyncoccota, formerly referred to as the CPR (Candidate
Phyla Radiation) clade, and the phylum Fidelibacterota, previously
known as the 'Marine Group A' or SAR406 group. Both phylum names are
derived from the genus names of Minisyncoccus archaeiphilus PMX.108T
(=JCM 39522T) and Fidelibacter multiformis IA91T (=JCM 39387T),
respectively. All the above species show special characteristics that
could only be demonstrated through cultivation, such as obligate
symbiosis with attachment to the cell surface of a specific host,
formation of protrusions, or inability to grow without utilizing
specific cellular components of other organisms. These reports have
provided important insights not only for taxonomy but for whole
microbiology, including physiology, ecology, and evolution. At
present, strains MK-D1T and PMX.108T are only available from JCM among
numerous international culture collections. JCM provides
phylogenetically and physiologically diverse strains, in addition to
the above strains, as live cultures to the scientific community.

References:
Kato et al. 2022. Nanobdella aerobiophila gen. nov., sp. nov., a
thermoacidophilic, obligate ectosymbiotic archaeon, and proposal of
Nanobdellaceae fam. nov., Nanobdellales ord. nov. and Nanobdellia
class. nov.
Int. J. Syst. Evol. Microbiol. 72: 005489.
DOI: 10.1099/ijsem.0.005489

Imachi et al. 2024. Promethearchaeum syntrophicum gen. nov., sp. nov.,
an anaerobic, obligately syntrophic archaeon, the first isolate of the
lineage 'Asgard' archaea, and proposal of the new archaeal phylum
Promethearchaeota phyl. nov. and kingdom Promethearchaeati regn. nov.
Int. J. Syst. Evol. Microbiol. 74: 006435.
DOI: 10.1099/ijsem.0.006435

Katayama et al. 2024. Fidelibacter multiformis gen. nov., sp. nov.,
isolated from a deep subsurface aquifer and proposal of
Fidelibacterota phyl. nov., formerly called Marine Group A, SAR406 or
Candidatus Marinimicrobia
Int. J. Syst. Evol. Microbiol. 74: 006558.
DOI: 10.1099/ijsem.0.006558

Nakajima et al. 2025. Minisyncoccus archaeiphilus gen. nov., sp. nov.,
a mesophilic, obligate parasitic bacterium and proposal of
Minisyncoccaceae fam. nov., Minisyncoccales ord. nov., Minisyncoccia
class. nov. and Minisyncoccota phyl. nov. formerly referred to as
Candidatus Patescibacteria or candidate phyla radiation
Int. J. Syst. Evol. Microbiol. 75: 006668.
DOI: 10.1099/ijsem.0.006668

Shingo Kato Ph. D.
Curator (Archaea and extremophiles)

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Isolation source category added in the Lists of JCM strains
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Isolation source category has been added in the Lists of JCM Strains.
At the present version, only prokaryotic strains are targeted.

Lists of JCM strains
https://www.jcm.riken.jp/JCM/list/

List of isolation source category
https://www.jcm.riken.jp/JCM/list/description.html

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Official BRC Bluesky (Social Media) Account Now Open
+---------------------------------------------------------------------
BRC has launched an official account on Bluesky, a decentralized
social networking service that is gaining popularity.
We will be sharing information and updates related to BioResources.
Please follow us!

@riken-brc-en.bsky.social

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Newly cataloged strains (2025.03.01 - 2025.06.30)
+---------------------------------------------------------------------
Bacteria
Acidisoma cladoniae                    JCM 35634  Type strain
"Actinomyces ruminis"                  JCM 32641  Proposed type strain
"Agrococcus chionoecetis"              JCM 37393  Proposed type strain
Aliiroseovarius conchicola             JCM 37203  Type strain
"Alkalimonas cellulosilytica"          JCM 35955  Proposed type strain
"Alkalimonas mucilaginosa"             JCM 35954  Proposed type strain
Antrihabitans spumae                   JCM 33914
Antrihabitans spumae                   JCM 34493  Type strain
"Aquirufa avitistagni"                 JCM 37100  Proposed type strain
"Aquirufa echingensis"                 JCM 37096  Proposed type strain
"Aquirufa esocilacus"                  JCM 37094  Proposed type strain
"Aquirufa novilacunae"                 JCM 37098
"Aquirufa novilacunae"                 JCM 37099  Proposed type strain
"Aquirufa originis"                    JCM 37095  Proposed type strain
"Aquirufa salirivi"                    JCM 37097  Proposed type strain
Arcobacter iocasae                     JCM 35939  Type strain
Azotosporobacter soli                  JCM 35641  Type strain
Bacillus bruguierae                    JCM 35615  Type strain
Bacillus kandeliae                     JCM 35619  Type strain
Bacillus yunxiaonensis                 JCM 35616  Type strain
Blautia sp.                            JCM 36141
Blautia sp.                            JCM 36214
Brooklawnia propionicigenes            JCM 15806
"Burkholderia theae"                   JCM 36471
Butyricimonas sp.                      JCM 36246
"Caenicola nitritireducens"            JCM 31897  Proposed type strain
Christiangramia sediminicola           JCM 36336  Type strain
"Chromobacterium indicum"              JCM 36723  Proposed type strain
"Chryseobacterium gotjawalense"        JCM 35602  Proposed type strain
"Chryseobacterium urinae"              JCM 36476  Proposed type strain
"Ciceribacter sichuanensis"            JCM 35649  Proposed type strain
Clostridium sp.                        JCM 36194
"Comamonas squillarum"                 JCM 35896  Proposed type strain
"Congregicoccus parvus"                JCM 36569  Proposed type strain
Crassaminicella thermophila            JCM 34213  Type strain
Curvibacter soli                       JCM 36178  Type strain
"Cytobacillus mangrovibacter"          JCM 35618  Proposed type strain
"Cytobacillus spartinae"               JCM 35621  Proposed type strain
"Deferrivibrio metallireducens"        JCM 39088  Proposed type strain
Desulfosoma caldarium                  JCM 15554  Type strain
"Desulfurivibrio dismutans"            JCM 39203  Proposed type strain
"Elusimicrobium posterum"              JCM 31828  Proposed type strain
"Elusimicrobium simillimum"            JCM 31830  Proposed type strain
Enterocloster sp.                      JCM 36192
"Enterococcus hailinensis"             JCM 37000  Proposed type strain
Enterococcus montenegrensis            JCM 34907
"Erwinia aeris"                        JCM 37069  Proposed type strain
Extensimonas soli                      JCM 36176  Type strain
Faecalibacterium langellae             JCM 39552  Type strain
"Fictibacillus fluitans"               JCM 36474  Proposed type strain
"Flexibacterium corallicola"           JCM 35474  Proposed type strain
"Frateuria hangzhouensis"              JCM 35226  Proposed type strain
Fulvimarina uroteuthidis               JCM 36703  Type strain
Galbitalea sp.                         JCM 36272
Gaoshiqia hydrogeniformans             JCM 36072  Type strain
Geomonas sp.                           JCM 33031
"Gracilimonas aurantiaca"              JCM 37229  Proposed type strain
Gulosibacter sediminis                 JCM 30297  Type strain
"Halobacillus rhizosphaerae"           JCM 36534  Proposed type strain
Halodesulfovibrio sp.                  JCM 32479
Hohaiivirga grylli                     JCM 34655  Type strain
Humidisolicoccus flavus                JCM 37009  Type strain
Isachenkonia alkalipeptolytica         JCM 32929  Type strain
"Isoalcanivorax beigongshangi"         JCM 35319  Proposed type strain
"Jannaschia ovalis"                    JCM 36187  Proposed type strain
Janthinobacterium aestuarii            JCM 36076  Type strain
Kitasatospora camelliae                JCM 37022  Type strain
"Kluyvera chilikensis"                 JCM 35578
"Kluyvera excreta"                     JCM 35577
"Lachnoanaerobaculum sanguinis"        JCM 36186  Proposed type strain
Lacticaseibacillus salsurae            JCM 37150  Type strain
Lactovum odontotermitis                JCM 34431  Type strain
Lactovum odontotermitis                JCM 34432
"Leclercia barmai"                     JCM 36544  Proposed type strain
Leeuwenhoekiella obamensis             JCM 36940  Type strain
"Leptotrichia alba"                    JCM 36662  Proposed type strain
"Leptotrichia mesophila"               JCM 36567  Proposed type strain
"Leptotrichia rugosa"                  JCM 36566  Proposed type strain
"Leuconostoc aquikimchii"              JCM 37028  Proposed type strain
"Leuconostoc aquikimchii"              JCM 37029
Levilactobacillus muriae               JCM 37001  Type strain
Limosilactobacillus kribbianus         JCM 35701  Type strain
"Lipingzhangella rawalii"              JCM 32979  Proposed type strain
"Lutibacter atrimaris"                 JCM 32877  Proposed type strain
"Lysobacter arvi"                      JCM 32757  Proposed type strain
"Magnetovirga frankeli"                JCM 39467  Proposed type strain
"Mangrovibrevibacter kandeliae"        JCM 34923  Proposed type strain
Marinicellulosiphila megalodicopiae    JCM 31119  Type strain
"Marinospirillum alkalitolerans"       JCM 35956
"Marinospirillum alkalitolerans"       JCM 35957  Proposed type strain
"Maritimibacter harenae"               JCM 33811  Proposed type strain
Marivivens marinum                     JCM 36630  Type strain
"Massilia phyllosphaerae"              JCM 36643  Proposed type strain
"Massilia phyllostachyos"              JCM 35225  Proposed type strain
"Meridianimarinicoccus marinus"        JCM 37289  Proposed type strain
Metabacillus rhizosphaerae             JCM 35614  Type strain
Metabacillus sediminis                 JCM 35620  Type strain
Methylobacterium sp.                   JCM 34944
Microaceticoccus formicicus            JCM 39108  Type strain
"Microbacterium alkaliflavum"          JCM 36707  Proposed type strain
Microbacterium candidum                JCM 36480  Type strain
Microbacterium capsulatum              JCM 36481  Type strain
"Microbacterium chionoecetis"          JCM 37392  Proposed type strain
Micropruina sonneratiae                JCM 34552  Type strain
"Mycobacterium crassicus"              JCM 35365  Proposed type strain
"Mycobacterium nativiensis"            JCM 35368  Proposed type strain
"Mycobacterium vasticus"               JCM 35364  Proposed type strain
"Mycobacterium zoologicum"             JCM 35366  Proposed type strain
"Mycobacterium zoologicum"             JCM 35367
"Nesiotobacter zosterae"               JCM 14066  Proposed type strain
Nocardia arseniciresistens             JCM 35916  Type strain
Nocardioides eburneus                  JCM 37205  Type strain
"Nocardioides jiangxiensis"            JCM 36377  Proposed type strain
"Nocardioides limicola"                JCM 33692  Proposed type strain
"Oceanimonas pelagia"                  JCM 36023  Proposed type strain
"Oceanispirochaeta piezotolerans"      JCM 32615  Proposed type strain
"Oerskovia flava"                      JCM 35248  Proposed type strain
"Ornithinibacillus xuwenensis"         JCM 36753  Proposed type strain
Oryzomonas rubra                       JCM 33033  Type strain
Paenibacillus campi                    JCM 36670  Type strain
Paenibacillus campi                    JCM 36671
"Paenibacillus haidiansis"             JCM 37487  Proposed type strain
"Paenibacillus kandeliae"              JCM 34547  Proposed type strain
"Paenibacillus sanfengchensis"         JCM 37488  Proposed type strain
"Paracoccus aurantius"                 JCM 36634  Proposed type strain
"Paracoccus yibinensis"                JCM 36429  Proposed type strain
"Parelusimicrobium proximum"           JCM 31829  Proposed type strain
Peptoniphilus sp.                      JCM 36142
Phocaeicola sp.                        JCM 36017
Phocaeicola sp.                        JCM 36018
Pilosibacter fragilis                  JCM 37189
"Planococcus beigongshangi"            JCM 33964  Proposed type strain
"Planomicrobium beijingensis"          JCM 34410  Proposed type strain
"Pontosulfidobacter cellobiosiphilus"  JCM 32480  Proposed type strain
Prevotella sp.                         JCM 36069
Pseudarthrobacter naphthalenicus       JCM 36482  Type strain
"Pseudidiomarina fusca"                JCM 35760  Proposed type strain
"Pseudodesulfovibrio turroides"        JCM 32483  Proposed type strain
"Pseudogemmobacter faecipullorum"      JCM 34182  Proposed type strain
Pseudolactococcus yaeyamensis          JCM 36015  Type strain
Pseudomonas arabinosi                  JCM 37131  Type strain
Pseudomonas atacamensis                JCM 34579
"Pseudomonas ceruminis"                JCM 34110  Proposed type strain
"Pseudomonas faucium"                  JCM 34112  Proposed type strain
Pseudomonas fjordensis                 JCM 36636  Type strain
Pseudomonas frigoris                   JCM 37141  Type strain
Pseudomonas huanghezhanensis           JCM 36635  Type strain
Pseudomonas lyxosi                     JCM 37126  Type strain
Pseudomonas parafulva                  JCM 35035
"Pseudomonas paraglycinae"             JCM 34581  Proposed type strain
"Pseudomonas parakoreensis"            JCM 34582  Proposed type strain
"Pseudomonas parasichuanensis"         JCM 34580  Proposed type strain
"Pseudomonas pharyngis"                JCM 34583  Proposed type strain
"Pseudomonas pseudonitroreducens"      JCM 34578  Proposed type strain
"Pseudomonas sputi"                    JCM 34577  Proposed type strain
Pseudomonas tohonis                    JCM 34584
"Pseudomonas urethralis"               JCM 34111  Proposed type strain
"Pseudomonas wuhanensis"               JCM 35688  Proposed type strain
Psychrobacillus mangrovi               JCM 35478  Type strain
Psychrobacter saeujeotis               JCM 37231  Type strain
Qipengyuania profunda                  JCM 36585  Type strain
Qipengyuania profunda                  JCM 36586
"Rheinheimera metallidurans"           JCM 35551
Rhodococcus indonesiensis              JCM 36625
Rhodococcus sacchari                   JCM 35797  Type strain
"Rhodoligotrophos ferricapiens"        JCM 36057  Proposed type strain
Rodentibacter abscessus                JCM 37054  Type strain
Rodentibacter abscessus                JCM 37055
Rodentibacter abscessus                JCM 37056
Roseomonas xinghualingensis            JCM 35902  Type strain
Roseovarius conchicola                 JCM 37202  Type strain
Roseovarius phycicola                  JCM 36647  Type strain
Roseovarius rhodophyticola             JCM 36651  Type strain
"Saccharopolyspora mangrovi"           JCM 34548  Proposed type strain
"Salinicoccus bachuensis"              JCM 37304  Proposed type strain
Sanyastnella coralliicola              JCM 35373  Type strain
"Saxibacter everestensis"              JCM 35335  Proposed type strain
Scrofimicrobium appendicitidis         JCM 36615  Type strain
"Shewanella youngdeokensis"            JCM 35745  Proposed type strain
Skermanella cutis                      JCM 34945  Type strain
"Sneathiella litorea"                  JCM 33810  Proposed type strain
"Sphingomonas fuzhouensis"             JCM 36769  Proposed type strain
Sphingopyxis kveilinensis              JCM 36394  Type strain
Stenotrophomonas pigmentata            JCM 36488  Type strain
Streptococcus dentalis                 JCM 36526  Type strain
Streptococcus gingivalis               JCM 36527  Type strain
Streptococcus lingualis                JCM 36528  Type strain
Streptococcus sp.                      JCM 36001
"Streptococcus zhangguiae"             JCM 34273  Proposed type strain
"Streptomyces adonidis"                JCM 36414  Proposed type strain
"Streptomyces albidocamelliae"         JCM 35920  Proposed type strain
Streptomyces antnestii                 JCM 34633  Type strain
Streptomyces avermitilis               JCM 37747
Streptomyces avermitilis               JCM 37748
Streptomyces avermitilis               JCM 37749
Streptomyces avermitilis               JCM 37750
Streptomyces avermitilis               JCM 37751
Streptomyces avermitilis               JCM 37752
Streptomyces avermitilis               JCM 37753
Streptomyces avermitilis               JCM 37754
Streptomyces avermitilis               JCM 37847
Streptomyces avermitilis               JCM 37848
Streptomyces avermitilis               JCM 37849
"Streptomyces chengbuensis"            JCM 36277  Proposed type strain
Streptomyces cucumeris                 JCM 36418  Type strain
Streptomyces lycopersici               JCM 36736  Type strain
"Streptomyces rubellus"                JCM 35793  Proposed type strain
Streptomyces solicamelliae             JCM 37293  Type strain
Streptomyces solicathayae              JCM 36737  Type strain
"Streptomyces tabacisoli"              JCM 37027  Proposed type strain
Sulfitobacter sediminis                JCM 37145  Type strain
"Terrimonas alba"                      JCM 37058  Proposed type strain
Terripilifer ovatus                    JCM 36465  Type strain
Thalassobellus suaedae                 JCM 36598  Type strain
Thalassobellus suaedae                 JCM 36599
Thalassotalea fonticola                JCM 34824  Type strain
Thiofaba tepidiphila                   JCM 39392
"Thiohalorhabdus methylotropha"        JCM 35977  Proposed type strain
Unidentified bacterium                 JCM 36071
Unidentified bacterium                 JCM 36193
Ureaplasma ceti                        JCM 39153  Type strain
Ureaplasma ceti                        JCM 39155
Ureaplasma ceti                        JCM 39156
"Ureibacillus aquaedulcis"             JCM 36475  Proposed type strain
Veillonella orientalis                 JCM 33967  Type strain

Archaea
Halobellus marinus                     JCM 34310  Type strain
Halobellus ordinarius                  JCM 34311  Type strain
"Haloferax marisrubri"                 JCM 19566  Proposed type strain
"Haloferax profundi"                   JCM 19567  Proposed type strain
Haloplanus halobius                    JCM 34152  Type strain
Haloplanus halophilus                  JCM 34313  Type strain
Haloplanus pelagicus                   JCM 34151  Type strain
Haloplanus salilacus                   JCM 34153  Type strain
Halorarum halobium                     JCM 34145  Type strain
"Halosimplex amylolyticum"             JCM 37371  Proposed type strain
"Halosimplex halobium"                 JCM 34482  Proposed type strain
"Halosimplex marinum"                  JCM 34315  Proposed type strain
"Halovenus amylolytica"                JCM 30833  Proposed type strain
"Halovenus halobia"                    JCM 34159  Proposed type strain
"Halovenus marina"                     JCM 37151  Proposed type strain
Methanosarcina baikalica               JCM 39438  Type strain
"Salinibaculum marinum"                JCM 36494  Proposed type strain
"Salinibaculum rarum"                  JCM 35607  Proposed type strain
"Salinibaculum salinum"                JCM 36493  Proposed type strain
Salinirarus marinus                    JCM 34314  Type strain
"Salinirubellus litoreus"              JCM 36495  Proposed type strain

Fungi
Aaosphaeria arxii                      JCM 39574
Alternaria chlamydospora               JCM 39575
Alternaria sp.                         JCM 39592
Ascoidea xinghuacunensis               JCM 36890  Type strain
Atractium sp.                          JCM 39337
Camptophora sp.                        JCM 39274
Camptophora sp.                        JCM 39275
Camptophora sp.                        JCM 39276
Camptophora sp.                        JCM 39277
Camptophora sp.                        JCM 39278
Camptophora sp.                        JCM 39279
Cladosporium endophyticum              JCM 37764
Cladosporium halotolerans              JCM 37766
Cladosporium perangustum               JCM 37760
Cladosporium sp.                       JCM 37761
Cladosporium sp.                       JCM 37762
Cladosporium sp.                       JCM 37763
Cladosporium sp.                       JCM 37768
Cladosporium sp.                       JCM 37769
Cladosporium sp.                       JCM 37770
Cladosporium sp.                       JCM 37771
Cladosporium sp.                       JCM 37772
Cladosporium sp.                       JCM 39603
Cladosporium sp.                       JCM 39604
Cladosporium sp.                       JCM 39605
Devonomyces endophyticus               JCM 37765
Didymella heteroderae                  JCM 39578
Didymella segeticola                   JCM 39581
Epicoccum sp.                          JCM 39577
Epicoccum sp.                          JCM 39586
Favolaschia nipponica                  JCM 32409
Favolaschia nipponica                  JCM 32410
Favolaschia nipponica                  JCM 33340
Favolaschia nipponica                  JCM 33341
Favolaschia nipponica                  JCM 39104
Favolaschia nipponica                  JCM 39105
Favolaschia nipponica                  JCM 39106
Favolaschia nipponica                  JCM 39267
Geotrichum hubeiense                   JCM 36896  Type strain
Geotrichum hubeiense                   JCM 36897
Geotrichum sinensis                    JCM 36364
Hanseniaspora drosophilae              JCM 36741  Type strain
Hanseniaspora drosophilae              JCM 36742
Hanseniaspora drosophilae              JCM 36748
Kobayasiyomyces mycetophilus           JCM 32407
Kobayasiyomyces mycetophilus           JCM 32408
Kobayasiyomyces mycetophilus           JCM 39102  ex-epitype strain
Kobayasiyomyces mycetophilus           JCM 39103
Kobayasiyomyces mycetophilus           JCM 39266
Kodamaea hongheensis                   JCM 35737  Type strain
Magnusiomyces pitmudophilus            JCM 36982  Type strain
Magnusiomyces pitmudophilus            JCM 36984
Magnusiomyces pitmudophilus            JCM 37668
Malassezia polysorbatinonusa           JCM 39527  Type strain
Meira marina                           JCM 37743  Type strain
Meira qingyuanensis                    JCM 36711  Type strain
Montagnula chromolaenae                JCM 39589
Neocucurbitaria keratinophila          JCM 39585
Neocucurbitaria sp.                    JCM 39582
Neocucurbitaria sp.                    JCM 39584
Neodevriesia kalakoutskii              JCM 39594
Neodevriesia metrosideri               JCM 39601
Neodevriesia modesta                   JCM 39591
Nigrograna sp.                         JCM 39598
Paecilomyces divaricatus               JCM 12812
Paecilomyces formosus                  JCM 28097
Paecilomyces formosus                  JCM 28182
Paecilomyces sp.                       JCM 11338
Paradendryphiella arenariae            JCM 39580
Phaeophleospora sp.                    JCM 39590
Pichia kregeriana                      JCM 36906  Type strain
Pichia phaffii                         JCM 37800  Type strain
Pichia ureolytica                      JCM 36370  Type strain
Pichia wuzhishanensis                  JCM 36905  Type strain
Pseudocercospora sp.                   JCM 39583
Pseudopithomyces palmicola             JCM 39576
Pyrenochaetopsis sp.                   JCM 39579
Saccharomyces cerevisiae               JCM 37217
Septoria galeopsidis                   JCM 39600
Sphaerulina sp.                        JCM 37767
Stemphylium sp.                        JCM 39588
Subplenodomus galicola                 JCM 39596
Unidentified fungus                    JCM 39451
Unidentified fungus                    JCM 39597
Unidentified fungus                    JCM 39599
Valsaria insitiva                      JCM 39593
Zalaria obscura                        JCM 39587
Zasmidium sp.                          JCM 39595

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2025.07.08


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