PYCC 10145
1 - Taxon name
Jamesozyma jinghongensis
2 - Classification
Ascomycota
3 - Strain (species name) changes
NA
4 - Status of the strain
Type strain of Jamesozyma jinghongensis; Type strain of Kazachstania jinghongensis
5 - Basis for identification
Molecular (D1/D2)
6 - Identified by
Feng-Li et al. 2024
7 - Original strain number
NYNU 17944
8 - Accession numbers in other collections
CBS 15232; CICC 33272
9 - Biological Safety Level
BSL-1
10 - Access and Benefit Sharing (CBD, Nagoya protocol)
No known ABS restrictions
11 - PYCC strain status
Open
12 - Mediterranean strain
No
13 - Substrate of isolation
Rotting wood
14 - Category of substrate
Vascular plants, mosses & algae
15 - Locality
Jinghong, Xishuangbanna Tropical Rainforest, Yunnan Province
16 - Country of origin
China
17 - Latitude, longitude coordinates

21, 100

18 - Sample Collected by
September 2017
19 - Isolated by and date of isolation
September 2017
20 - Isolation details
YMA with chloramphenicol, 25ºC
21 - Deposited by
Feng-Li, Jan. 2025
22 - History
Feng-Li > PYCC
23 - Preservation
Glass beads; 20% Glycerol; -150C
24 - Price per culture
90€
25 - Remarks
NA
26 - Medium for growth
YMA
DNA Sequence
Region
26S
Sequence Title
MG255708
Gene Bank Url
https://www.ncbi.nlm.nih.gov/nuccore/MG255708
DNA Sequence
Region
ITS
Sequence Title
MG255727
Gene Bank Url
https://www.ncbi.nlm.nih.gov/nuccore/MG255727
Title
Saccharomycetaceae: delineation of fungal genera based on phylogenomic analyses, genomic relatedness indices and genomics-based synapomorphies

Author

F. Liu, Z.-D. Hu, A. Yurkov, X.-H. Chen, W.-J. Bao, Q. Ma, W.-N. Zhao, S. Pan, X.-M. Zhao, J.-H. Liu, Q.-M. Wang, T. Boekhout

Abstract

A correct classification of fungi, including yeasts, is of prime importance to understand fungal biodiversity and to communicate about this diversity. Fungal genera are mainly defined based on phenotypic characteristics and the results of single or multigene-based phylogenetic analyses. However, because yeasts often have less phenotypic characters, their classification experienced a strong move towards DNA-based data, from short ribosomal sequences to multigene phylogenies and more recently to phylogenomics. Here, we explore the usefulness of various genomics-based parameters to circumscribe fungal genera more correctly taking the yeast domain as an example. Therefore, we compared the results of a phylogenomic analysis, average amino acid identity (AAI) values, the presence of conserved signature indels (CSIs), the percentage of conserved proteins (POCP) and the presence- absence patterns of orthologs (PAPO). These genome-based metrics were used to investigate their usefulness in demarcating 13 hitherto relatively well accepted genera in Saccharomycetaceae, namely Eremothecium, Grigorovia, Kazachstania, Kluyveromyces, Lachancea, Nakaseomyces, Naumovozyma, Saccharomyces, Tetrapisispora, Torulaspora, Vanderwaltozyma, Zygosaccharomyces and Zygotorulaspora. As a result, most of these genera are supported by the genomics-based metrics, but the genera Kazachstania , Nakaseomyces and Tetrapisispora were shown to be genetically highly diverse based on the above listed analyses. Considering the results obtained for the presently recognized genera, a range of 80–92% POCP values and a range of 60–70 % AAI values might be valuable thresholds to discriminate genera in Saccharomycetaceae. Furthermore, the genus-specific genes identified in the PAPO analysis and the CSIs were found to be useful as synapomorphies to characterize and define genera in Saccharomycetaceae. Our results indicate that the combined monophyly-based phylogenomic analysis together with genomic relatedness indices and synapomorphies provide promising approaches to delineating yeast genera and likely those of filamentous fungi as well. The genera Kazachstania, Nakaseomyces and Tetrapisispora are revised and we propose eight new genera and 41 new combinations.

Publication Date

Link to Publication

https://doi.org/10.3767/persoonia.2024.52.01