cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29634419.v2
title: Systematic identification of the functional lncRNAs during H7N9 avian influenza virus infection in mice

description: Accumulating studies have identified the pivotal role of long non-coding RNAs (lncRNAs) in participating in host-virus interactions during virus infections. However, the regulatory roles of lncRNAs in influenza A virus (IAV) infection are still not fully elucidated. In this study, using high-throughput sequencing, we comprehensively compared the expression profiles of lncRNAs and mRNAs in mouse lungs infected either with the nonpathogenic parental (SDL124) H7N9 virus or its moderately pathogenic mouse-adapted (S8) variant. A total of 7636 significantly differentially expressed (SDE) lncRNAs were obtained in the S8-infected group compared to the mock group. As for the SDL124 group, 1042 SDE lncRNAs were identified. Subsequently, the mRNAs co-expressed with SDE lncRNAs were subjected to functional annotation and pathway enrichment analysis. The results indicated that the target mRNAs regulated by the S8 virus were mainly enriched in various immunological processes and exhibited a strong correlation with inflammatory-related signaling pathways. Moreover, 12 lncRNAs and 10 mRNAs co-expressed with SDE lncRNAs were selected and successfully verified by qPCR. Among these lncRNAs, NONMMUG032982.2 and NONMMUG032328.2 exhibited strong antiviral activity against IAV. Additionally, these two lncRNAs were chose for further in-depth bioinformatics analysis, including transcription factor prediction, coding capacity assessment, genomic location, construction of secondary structure, and prediction of potential interacting proteins. Taken together, these findings provide a cluster of lncRNAs probably associated with the virulence of IAV in mice and shed light on the anti-IAV effect of two functional lncRNAs, establishing molecular foundation for further exploring the regulatory mechanisms of lncRNAs in IAV infection.
DOI: 10.6084/m9.figshare.29634419.v1
title: Systematic identification of the functional lncRNAs during H7N9 avian influenza virus infection in mice

description: Accumulating studies have identified the pivotal role of long non-coding RNAs (lncRNAs) in participating in host-virus interactions during virus infections. However, the regulatory roles of lncRNAs in influenza A virus (IAV) infection are still not fully elucidated. In this study, using high-throughput sequencing, we comprehensively compared the expression profiles of lncRNAs and mRNAs in mouse lungs infected either with the nonpathogenic parental (SDL124) H7N9 virus or its moderately pathogenic mouse-adapted (S8) variant. A total of 7636 significantly differentially expressed (SDE) lncRNAs were obtained in the S8-infected group compared to the mock group. As for the SDL124 group, 1042 SDE lncRNAs were identified. Subsequently, the mRNAs co-expressed with SDE lncRNAs were subjected to functional annotation and pathway enrichment analysis. The results indicated that the target mRNAs regulated by the S8 virus were mainly enriched in various immunological processes and exhibited a strong correlation with inflammatory-related signaling pathways. Moreover, 12 lncRNAs and 10 mRNAs co-expressed with SDE lncRNAs were selected and successfully verified by qPCR. Among these lncRNAs, NONMMUG032982.2 and NONMMUG032328.2 exhibited strong antiviral activity against IAV. Additionally, these two lncRNAs were chose for further in-depth bioinformatics analysis, including transcription factor prediction, coding capacity assessment, genomic location, construction of secondary structure, and prediction of potential interacting proteins. Taken together, these findings provide a cluster of lncRNAs probably associated with the virulence of IAV in mice and shed light on the anti-IAV effect of two functional lncRNAs, establishing molecular foundation for further exploring the regulatory mechanisms of lncRNAs in IAV infection.
DOI: 10.5281/zenodo.16607355
title: Accepted species list of Eurotiales, including a DNA sequence reference database, as curated by the International Commission of Penicillium and Aspergillus (ICPA)

description: Eurotiales is a diverse and speciose order and includes economically important genera like Aspergillus, Penicillium, Paecilomyces and Talaromyces. Historically, species identifications based on morphology are challenging. The publication of accepted species lists and the availability of representative DNA sequences for type strains have contributed greatly towards accurate species identification and facilitated the description of many new species. However, despite current advancements, a proportion of newly described species within these taxonomically challenging genera represent, in fact, existing species, which raises obvious concerns. 

This study thus aimed to further modernise the taxonomy of Eurotiales by addressing key challenges in species identification and classification. Our study objectives were threefold: to review species described after 2023, update the accepted species list, and release a curated DNA sequence dataset to facilitate future species identifications. We conclude that a move to a phylogenetic species concept is necessary but continue to support the inclusion of morphological descriptions and, where possible, associated secondary metabolite, exoenzyme, physiology and ecological data when introducing new species. 

Our list now contains 1393 species classified into four families and 26 genera, with Aspergillus (n=465), Penicillium (n=598) and Talaromyces (n=236) containing the most species. To aid sequence-based identifications and species descriptions under a phylogenetic species concept, we release a curated DNA reference sequence database containing 18837 DNA sequences (3867 ITS, 5277 BenA, 5110 CaM and 4583 RPB2) generated from 5325 strains. Sequences were selected to best cover the infraspecies variation under our current understanding of each species. The sequence database will be kept up to date as new information becomes available. This manuscript presents a major leap towards our goal to facilitate work with Eurotiales, while providing the taxonomic framework to support research excellence related to this important fungal group.

This dataset is curated and kept up to date by the International Commission of Penicillium and Aspergillus (ICPA). If you have questions or suggestions, please get in contact with ICPA members.
DOI: 10.60712/si-id77345.1
title: StrainInfo SI-ID 77345.1

description: StrainInfo dataset 77345 about a strain of Hydnomerulius pinastri. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77346.1
title: StrainInfo SI-ID 77346.1

description: StrainInfo dataset 77346 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77347.1
title: StrainInfo SI-ID 77347.1

description: StrainInfo dataset 77347 about a strain of Yarrowia lipolytica. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.6084/m9.figshare.26046712
title: Data behind Figure 3 (example peak fitting)

description: <b>File contains:</b>normalized spectra between 2100-3000 cm-1, as shown in figure (left panel)best fits (right panels)unprocessed spectra (aside from background removal) between 800-3200 cm-1<br>
DOI: 10.6084/m9.figshare.26046712.v1
title: Data behind Figure 3 (example peak fitting)

description: <b>File contains:</b>normalized spectra between 2100-3000 cm-1, as shown in figure (left panel)best fits (right panels)unprocessed spectra (aside from background removal) between 800-3200 cm-1<br>
DOI: 10.60712/si-id77212.1
title: StrainInfo SI-ID 77212.1

description: StrainInfo dataset 77212 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77213.1
title: StrainInfo SI-ID 77213.1

description: StrainInfo dataset 77213 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77214.1
title: StrainInfo SI-ID 77214.1

description: StrainInfo dataset 77214 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77215.1
title: StrainInfo SI-ID 77215.1

description: StrainInfo dataset 77215 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77266.1
title: StrainInfo SI-ID 77266.1

description: StrainInfo dataset 77266 about a strain of Penicillium euglaucum. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77267.1
title: StrainInfo SI-ID 77267.1

description: StrainInfo dataset 77267 about a strain of Penicillium expansum. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77268.1
title: StrainInfo SI-ID 77268.1

description: StrainInfo dataset 77268 about a strain of Bipolaris sorokiniana. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77348.1
title: StrainInfo SI-ID 77348.1

description: StrainInfo dataset 77348 about a strain of Tausonia pullulans. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77349.1
title: StrainInfo SI-ID 77349.1

description: StrainInfo dataset 77349 about a strain of Hanseniaspora guilliermondii. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77350.1
title: StrainInfo SI-ID 77350.1

description: StrainInfo dataset 77350 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77216.1
title: StrainInfo SI-ID 77216.1

description: StrainInfo dataset 77216 about a strain of Vishniacozyma carnescens. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77351.1
title: StrainInfo SI-ID 77351.1

description: StrainInfo dataset 77351 about a strain of Candida boidinii. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77218.1
title: StrainInfo SI-ID 77218.1

description: StrainInfo dataset 77218 about a strain of Vishniacozyma peneaus. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77219.1
title: StrainInfo SI-ID 77219.1

description: StrainInfo dataset 77219 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77269.1
title: StrainInfo SI-ID 77269.1

description: StrainInfo dataset 77269 about a strain of Donkioporia expansa. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77270.1
title: StrainInfo SI-ID 77270.1

description: StrainInfo dataset 77270 about a strain of Schizophyllum commune. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77271.1
title: StrainInfo SI-ID 77271.1

description: StrainInfo dataset 77271 about a strain of Bettsia alvei. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77272.1
title: StrainInfo SI-ID 77272.1

description: StrainInfo dataset 77272 about a strain of Ascosphaera apis. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77352.1
title: StrainInfo SI-ID 77352.1

description: StrainInfo dataset 77352 about a strain of Pichia kudriavzevii. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77353.1
title: StrainInfo SI-ID 77353.1

description: StrainInfo dataset 77353 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77354.1
title: StrainInfo SI-ID 77354.1

description: StrainInfo dataset 77354 about a strain of Lasiodiplodia theobromae. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77355.1
title: StrainInfo SI-ID 77355.1

description: StrainInfo dataset 77355 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77220.1
title: StrainInfo SI-ID 77220.1

description: StrainInfo dataset 77220 about a strain of Buckleyzyma aurantiaca. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77221.1
title: StrainInfo SI-ID 77221.1

description: StrainInfo dataset 77221 about a strain of Rhodosporidiobolus colostri. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77273.1
title: StrainInfo SI-ID 77273.1

description: StrainInfo dataset 77273 about a strain of Ascosphaera apis. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77274.1
title: StrainInfo SI-ID 77274.1

description: StrainInfo dataset 77274 about a strain of Ascosphaera apis. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77275.1
title: StrainInfo SI-ID 77275.1

description: StrainInfo dataset 77275 about a strain of Ascosphaera apis. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77276.1
title: StrainInfo SI-ID 77276.1

description: StrainInfo dataset 77276 about a strain of Ascosphaera apis. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77356.1
title: StrainInfo SI-ID 77356.1

description: StrainInfo dataset 77356 about a strain of Hypoxylon hinnuleum. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77357.1
title: StrainInfo SI-ID 77357.1

description: StrainInfo dataset 77357 about a strain of Calonectria hawksworthii. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77358.1
title: StrainInfo SI-ID 77358.1

description: StrainInfo dataset 77358 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77423.1
title: StrainInfo SI-ID 77423.1

description: StrainInfo dataset 77423 about a strain of Aspergillus silvaticus. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77277.1
title: StrainInfo SI-ID 77277.1

description: StrainInfo dataset 77277 about a strain of Pichia kudriavzevii. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77278.1
title: StrainInfo SI-ID 77278.1

description: StrainInfo dataset 77278 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77279.1
title: StrainInfo SI-ID 77279.1

description: StrainInfo dataset 77279 about a strain of Saccharomyces cerevisiae. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77280.1
title: StrainInfo SI-ID 77280.1

description: StrainInfo dataset 77280 about a strain of Clavispora lusitaniae. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77359.1
title: StrainInfo SI-ID 77359.1

description: StrainInfo dataset 77359 about a strain of Debaryomyces hansenii. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77360.1
title: StrainInfo SI-ID 77360.1

description: StrainInfo dataset 77360 about a strain of Nakaseomyces glabratus. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77361.1
title: StrainInfo SI-ID 77361.1

description: StrainInfo dataset 77361 about a strain of Unidentified. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77362.1
title: StrainInfo SI-ID 77362.1

description: StrainInfo dataset 77362 about a strain of Vanrija humicola. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77424.1
title: StrainInfo SI-ID 77424.1

description: StrainInfo dataset 77424 about a strain of Penicillium dierckxii. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77425.1
title: StrainInfo SI-ID 77425.1

description: StrainInfo dataset 77425 about a strain of Aspergillus microcysticus. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77426.1
title: StrainInfo SI-ID 77426.1

description: StrainInfo dataset 77426 about a strain of Boeremia lycopersici. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77427.1
title: StrainInfo SI-ID 77427.1

description: StrainInfo dataset 77427 about a strain of Didymella glomerata. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.
DOI: 10.60712/si-id77281.1
title: StrainInfo SI-ID 77281.1

description: StrainInfo dataset 77281 about a strain of Alternaria alternata. StrainInfo is a service developed to provide a resolution of microbial strain identifiers by storing culture collection numbers, their relations, and culture-associated data. StrainInfo is part of NFDI4Microbiota consortium.