Contribution of CABI and culture collections to a sustainable future through the utilisation of microbial genetic resources

Smith, David; Ryan, Matthew J.; Caine, Thelma S.

doi:10.1016/b978-0-12-818272-7.00010-9

Cited by 3 publications

(2 citation statements)

References 22 publications

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“…It now comprises 28 000 strains of fungi and 2000 strains of bacteria from 142 countries. Initially, isolates were sub-cultured, but from the 1960s long-term optimised storage by freeze drying and cryopreservation was introduced 3 (Fig. 1).…”

Section: Cabi Collectionmentioning

confidence: 99%

CABI’s 100 years in identifying and combating emerging fungal diseases in response to climate change

Smith

Casey²,

Ryan³

et al. 2022

Microbiol. Aust.

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CABI has been involved in identifying and combatting emerging fungal disease of plants for over 100 years and in doing so has built a wealth of resources to support farmers and practitioners in reducing crop loss. CABI does not achieve this alone -being an international, intergovernmental, not-for-profit organisation, its 49 Member Countries guide and influence its work, which a network of global partners helps deliver. This work is becoming more relevant in light of increasing threats from climate change, invasive species and pathogens becoming resistant to biocides. Here, we focus on how climate change is influencing disease occurrence and how CABI's work and resources can help in the battle to manage emerging and spreading diseases. CABI's culture collection maintains living and active strains of pathogens and biocontrol agents for use as reference materials, its diagnostic advisory service and network of partners helps identify problems and provide solutions and CABI's information resources underpin it all.

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Section: Cabi Collectionmentioning

confidence: 99%

CABI’s 100 years in identifying and combating emerging fungal diseases in response to climate change

Smith

Casey²,

Ryan³

et al. 2022

Microbiol. Aust.

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“…Culture collections are a powerful resource for addressing all manner of research questions. The CABI collection (Egham, UK) is one of the world’s largest fungal culture collections, boasting 28,000 strains spanning 100 years and 142 countries ( Smith et al 2022 ). Here, we capitalised on endophytic strains deposited in CABI’s collection to successfully sequence, assemble and annotate genomes for 15 taxa across 8 families and 5 orders.…”

Section: Introductionmentioning

confidence: 99%

Tapping Culture Collections for Fungal Endophytes: First Genome Assemblies for Three Genera and Five Species in theAscomycota

Hill

Levicky

Pitsillides

et al. 2023

Genome Biology and Evolution

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The Ascomycota form the largest phylum in the fungal kingdom and show a wide diversity of lifestyles, some involving associations with plants. Genomic data is available for many ascomycetes that are pathogenic to plants, but endophytes, which are asymptomatic inhabitants of plants, are relatively understudied. Here, using short- and long-read technologies, we have sequenced and assembled genomes for 15 endophytic ascomycete strains from CABI’s culture collections. We used phylogenetic analysis to refine the classification of taxa, which revealed that 7 of our 15 genome assemblies are the first for the genus and/or species. We also demonstrated that cytometric genome size estimates can act as a valuable metric for assessing assembly ‘completeness’, which can easily be overestimated when using BUSCOs alone and has broader implications for genome assembly initiatives. In producing these new genome resources, we emphasise the value of mining existing culture collections to produce data that can help to address major research questions relating to plant–fungal interactions.

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A polyphasic molecular approach to characterize a collection of grapevine endophytic bacteria with bioprotective potential

Bertazzoli,

Nerva,

Chitarra

et al. 2024

Journal of Applied Microbiology

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Aims The work presented here was conducted to characterize the biodiversity of a collection of bacterial isolates, mainly wood endophytes, as part of a research project focused on exploring their bioprotective potential for postharvest biological control of fruits. Methods and results This work was the basis for the development of a tailored method combining 16S rDNA sequencing and Rep-PCR to differentiate the isolates and identify them to genus level or below. More than one hundred isolates obtained from wood and roots of different grapevine genotypes were cultured on appropriate growth media and then subjected to the specified multistep molecular identification. Conclusions We have obtained good dereplication for grapevine-endophytic bacteria, together with reliable genetic identification: Both are essential prerequisites to properly characterize a biome-bank, and at the same time beneficial prerequisites to subsequently perform a correct bioprotection assessment.

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Contribution of CABI and culture collections to a sustainable future through the utilisation of microbial genetic resources

Cited by 3 publications

References 22 publications

CABI’s 100 years in identifying and combating emerging fungal diseases in response to climate change

CABI’s 100 years in identifying and combating emerging fungal diseases in response to climate change

Tapping Culture Collections for Fungal Endophytes: First Genome Assemblies for Three Genera and Five Species in theAscomycota

A polyphasic molecular approach to characterize a collection of grapevine endophytic bacteria with bioprotective potential

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