iiinova — where your digital self keeps evolving

7/8 Does the genomic toolkit actually get used? Layer-specific RNA-seq of a P. rufescens thallus seems to indicate so: Pth11 GPCRs, peptidase antimicrobial proteins and a LEC-1-like galectin all light up in the cortex/photobiont layer - the symbiotic interface.

Gene expression in different Peltigera layers

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6/8 Structure-based search finds ~103 GPCRs per genome - vs 26 with old sequence methods in Cladonia. 76% are Pth11-like (CFEM) receptors. These are often found in plant pathogens as well …the plot thickens further.

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4/8 And lurking in those plastic, repeat-rich regions: Starship-like elements - sometimes close to virulence-associated orthologs. Big mobile elements doing their big mobile-element things.

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2/8 Genome size ranges from a small 56 Mb (P. didactyla) to 145 Mb (P. aphthosa) - and almost all of that difference is transposable elements.

Genome sizes and transposable elements in Peltigera lichen genomes

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8/8 And iii) chlorogenic acid metabolism potentially caused by a GDSL-lipase like gene www.nature.com/articles/s41...

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7/8 ii) fusarium wilt resistance with QTL comprising RPP13-like disease resistance genes as well as a AT-hook motif nuclear-localized (AHL) protein www.nature.com/articles/s41...

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6/8 We also analyzed 218 traits (agronomic, resistance to biotic and abiotic stresses, fruit metabolic composition) scored in 3 field trials, in Spain, Italy and Türkiye among them i) prickliness. www.nature.com/articles/s41... where we could pinpoint an interesting LOG translocation.

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4/8 We then focused on 368 varieties, representative of the worldwide phenotypic and genetic diversity of eggplant and comprising its wild progenitors, Solanum incanum and Solanum insanum. We constructed a graphical pangenome… www.nature.com/articles/s41...

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2/8 We had started from a large worldwide collection of 3,400 eggplant varieties and wild progenitors and used it to reconstruct its domestication history in India and South-East Asia, and its later expansion doi.org/10.1111/tpj..... www.nature.com/articles/s41...

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Lucas Munnes just provided some update on Morelloid genomes and where Solanum nigrum might have come from at #SOLRUB2025

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It took us a very long time but here is Arslan with the Nicotina glauca genome and the leaf developmental series transcriptome and metabolome at #SOLRUB2025

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Vivien out of her usual lichen track presents the analysis of Alkengi officinarum and transcriptomic change during the calyx color change at #SOLRUB2025.

Björn Usadel @usadellab.bsky.social · 23/09/2025

Luciana Gaccione presents her phantastic results on the eggplant pangenome and panphenome at #SOLRUB2025.

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..and finally Marie's new Helixer models for Solanales at #SOLRUB2025

Björn Usadel @usadellab.bsky.social · 23/09/2025

And here is Marie about her new Solanacae models. Here the model B which is particularly good on potato.

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Björn Usadel @usadellab.bsky.social · 23/09/2025

Marie explains how she selects data for her Helixer gene annotations using Mercator quality control and Pubplant for genome selection at #SOLRUB2025. Read more about Pubplant: www.frontiersin.org/journals/pla...

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Björn Usadel @usadellab.bsky.social · 02/07/2025

Today I feel a bit old, 25 years working as a researcher. Time flies.

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Björn Usadel @usadellab.bsky.social · 14/03/2025

If you are looking for published plant genomes www.plabipd.de/pubplant_mai... might be useful where Rainer is tracking species with genomes for almost 10 years now... time flies. As he has added new useful views, we thought it is time to summarize this. www.biorxiv.org/content/10.1...

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Björn Usadel @usadellab.bsky.social · 05/03/2025

Flash Talk about @nfdi4plants.bsky.social at the #Plant2030 status meeting. Organize and store your plant research data for free as part of the German #NFDI. Check it out www.nfdi4plants.org free as in beer and open source.

Showing the Arc as main Dataplant container

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Björn Usadel @usadellab.bsky.social · 13/01/2025

@angelakranz.bsky.social presenting DataPLAN as part of the @nfdi4plants.bsky.social data management consortium at #PAG32. It makes data management plan generation painless, works online and you immediately see what happens. Try it dmpg.nfdi4plants.org or read about it here doi.org/10.3390/data...

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Björn Usadel @usadellab.bsky.social · 13/01/2025

@lucasmunnes.bsky.social presenting genomes in the Morelloid clade and drought stress for one member i.e. S.nigrum which we collected just in front of our institute @hhu.bsky.social)

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Björn Usadel @usadellab.bsky.social · 12/01/2025

Giovanni presenting the eggplant pangenome and announcing the SOL meeting in Turino in 2025.

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Björn Usadel @usadellab.bsky.social · 12/01/2025

The third eggplant talk in the Solanum session at #pag32 by Lorenzo Barchi. Eggplants for the win 😀

Björn Usadel @usadellab.bsky.social · 11/01/2025

Bruno explaining the Breeding value project on berry crops at #PAG32