- Genetic diversity of the cultivated vanilla in Madagascar. Lots of genetic groups based on SNPs, but not structured in space or environmentally, except maybe by altitude.
- Genetic diversity, population structure, and genome-wide association study for the flowering trait in a diverse panel of 428 moth bean (Vigna aconitifolia) accessions using genotyping by sequencing. NW India is a centre of diversity.
- Chromosome-level genome assembly and population genomic resource to accelerate orphan crop lablab breeding. Two domestication “events,” with the 2-seeded form originating in Ethiopia.
- Reference proteomes of five wheat species as starting point for future design of cultivars with lower allergenic potential. Einkorn is really low in potential allergens.
- Nazareno Strampelli and the first Green Revolution. And all without SNPs, GWAS, genomes or proteomes.
- Developments on Core Collections of Plant Genetic Resources: Do We Know Enough? Do we ever?
- Assessing Genetic Distinctness and Redundancy of Plant Germplasm Conserved Ex Situ Based on Published Genomic SNP Data. Looks like we may know enough for some things after all.
- An (un)common remedy to Indigenous communities’ subsistence: revisiting Traditional Knowledge Commons. As we delve deeper and deeper into the genetic diversity of collections, let’s not forget the associated Indigenous Knowledge.
- Diversity of sambals, traditional Indonesian chili pastes. Case in point? Any allergens though, I wonder?
Nibbles: Transformation, MAHARISHI, Pastoralists and climate change, Utopian okra, Landrace breeding, Ghana genebank, Indian community seedbank, Rice pan-genome, Perennial rice
- Towards resilient and sustainable agri-food systems. Summary report from the FORSEE Series of Töpfer Müller Gaßner GmbH (TMG). Take home message: We need an internationally agreed framework for agri-food systems transformation that reduces the externalities of the current systems. But how?
- Chair Summary and Meeting Outcome of the G20 Meeting of Agricultural Chief Scientists 2023. “We highlight the importance of locally adapted crops for the transition towards resilient agriculture and food systems, enhancing agricultural diversity, and improving food security and nutrition.” And that includes the wonderfully named Millets And OtHer Ancient GRains International ReSearcH Initiative (MAHARISHI). Ah, so that’s how.
- Are pastoralists and their livestock to blame for climate change? Spoiler alert: It’s complicated, but no. And here’s a digest of resources from the Land Portal explaining they can be part of sustainable and resilient agri-food systems.
- The Utopian Seed Project is developing more climate-resilient okra in the southern USA.
- Joseph Lofthouse, Julia Dakin, Shane Simonsen and Simon Gooder — interviewed here about landrace-based breeding — would approve of utopian okra.
- Plenty of landraces in the Ghana national genebank, according to this mainstream media article.
- Also plenty of landraces in India’s community seedbanks.
- Professor Zhang Jianwei at the National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University has built an rice pan-genome database based on 16 (landraces presumably) accessions representing all the major sub-populations. The technical details are here. Rice sustainability and resilience no doubt beckons. Okra next?
- No, perennial rice next, apparently.
How Native Americans got their horses
You know how you read in history textbooks that the Native Americans of the Great Plains got hold of horses from retreating Spanish colonists after the Pueblo Revolt of 1680? And you know how Native Americans have been saying that’s not what they think happened? That they in fact got their horses long before that? You know how rare it is that a scientific paper involving museum specimens and DNA includes Indigenous authors? And that said paper overturns a mainstream historical narrative and is then splashed all over the mainstream media? Very rare, that’s how rare.
The cost of tomatoes
I don’t know whether the article in The Media Line ((Strap line: Trusted Mideast News.)) a few days ago entitled “Israeli Scientists Develop Drought-Resistant Tomatoes in Response to Climate Change” was based on a press release. But if it wasn’t, it’s a pretty good catch, given the paper on which it is based is called “Epistatic QTLs for yield heterosis in tomato.” ((It’s part of the PNAS Special Feature: Harnessing Crop Diversity.))
Anyway, what the authors of the paper did was cross a wild tomato with a cultivated one, which conjured up about 1,500 different progenies, each with a different bit of wild genome. They then figured out which of those bits of genome were good at allowing their possessor to grow well with less water than normal.
According to our Trusted Mideast News source:
The study found that two specific areas in the plant’s genome lead to a 20%-50% increase in the overall yield in both regular and dry conditions. The overall size of the plant also was improved.
According to the researchers, the findings demonstrate the effectiveness of using wild species to enhance agricultural output. They could also prove to be widely applicable to other plants in the future.
Which got me thinking. Effective, sure. But how long did it take? Digging a little deeper revealed that the work relied on a genome of the wild tomato Solanum pennellii that was published in 2017. But that’s not where it all started:
…we sequenced and assembled the accession LA5240 (LYC1722) of the wild tomato species Solanum pennellii, an accession that was identified spuriously. Unlike the Solanum pennellii accession LA0716, for which we have previously generated a high quality draft genome, the accession LA5240 does not appear to exhibit any dwarfed, necrotic leaf phenotype when introgressed into modern tomato cultivars.
And that LA0716 was sequenced in 2014.
So our new climate-change-proof tomato was almost 10 years in the making and relied on a “spuriously” identified accession. Well done and all, but gosh, I hope the next one is easier.
Oh, and here’s a nice detail to close. The LA in LA5204? It stands for “Lost Accession.” What’s the story there, I wonder?
Nibbles: Food system transformation, Global food crisis, Rewilding, Genomics, Data management
- According to WWF, Solving the Great Food Puzzle involves, inter alia, nutritious indigenous crops, agrobiodiverse cropping systems, and traditional food cultures. Those are just 3 of 20 levers for food system transformation. Is it me or are levers and accelerators the current flavours of the month?
- Even the Gates Foundation agrees on that indigenous crop thing, kinda sorta, if you squint. In this piece, for example, Enock Chikava, Interim Director, Agricultural Development, waxes lyrical about teff.
- Meanwhile, in the middle of its tomato shortage, and not much interested in teff, the UK is betting on re-establishing prehistoric landscapes full of wild pigs and bison. Bold move.
- But who needs bison protein when you have the genome of the faba bean? Which after all is a nutritious indigenous crop, part of agrobiodiverse cropping systems, and a component of traditional food cultures.
- Ah, but you need to manage all that data on indigenous crops, and Clemson University is there to help. WWF take note.