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.
Brainfood: Why measure genetic diversity?
- Genetic diversity goals and targets have improved, but remain insufficient for clear implementation of the post-2020 global biodiversity framework. The struggle to ensure recognition of the importance of measuring genetic diversity is real, despite the available tools. And despite the range of uses to which the results can be put, as illustrated in the following papers.
- DNA barcoding markers provide insight into species discrimination, genetic diversity and phylogenetic relationships of yam (Dioscorea spp.). Measuring genetic diversity can help you tell species apart.
- Genetic diversity and population structure of barley landraces from Southern Ethiopia’s Gumer district: Utilization for breeding and conservation. Measuring genetic diversity can help you decide what’s new and what to use in breeding.
- Management of genetic erosion: The (successful) case study of the pear (Pyrus communis L.) germplasm of the Lazio region (Italy). Measuring genetic diversity can help you detect genetic erosion and figure out what to do about it.
- Genetic and Pomological Determination of the Trueness-to-Type of Sweet Cherry Cultivars in the German National Fruit Genebank. Measuring genetic diversity can help you fix mistakes in genebanks.
- Genetic diversity and local adaption of alfalfa populations (Medicago sativa L.) under long-term grazing. Measuring genetic diversity can help you identify adaptive genes.
- A common resequencing-based genetic marker data set for global maize diversity. Measuring genetic diversity can help you pinpoint useful flowering genes.
- Genome-wide association study of variation in cooking time among common bean (Phaseolus vulgaris L.) accessions using Diversity Arrays Technology markers. Measuring genetic diversity can help you identify carbon-friendly genes.
- Dissecting the genetic architecture of leaf morphology traits in mungbean (Vigna radiata (L.) Wizcek) using genome-wide association study. Measuring genetic diversity can help you find plants with nice leaves.
- Genetic Diversity Strategy for the Management and Use of Rubber Genetic Resources: More than 1,000 Wild and Cultivated Accessions in a 100-Genotype Core Collection. Measuring genetic diversity can help you go from over 1000 accessions to under 100.
- Sustainable seed harvesting in wild plant populations. Measuring genetic diversity can help you model optimal germplasm collecting strategies.
- Genetics of randomly bred cats support the cradle of cat domestication being in the Near East. Measuring genetic diversity can tell you where the cat was domesticated.
- Bacterial species diversity of traditionally ripened sheep legs from the Faroe Islands (skerpikjøt). Measuring genetic diversity can help you figure out how to ripen sheep legs properly.
Brainfood: Sulawesi Warty Pig, Neolithic violence, Early cotton, Livestock poop, Pontic millet, Bronze Age opium, Sami shamanism, Wild chickens
- Pigs as Pets: Early Human Relations with the Sulawesi Warty Pig (Sus celebensis). You don’t need to be a sedentary agricultural society to domesticate an animal as a pet. There was the dog, and also the Sulawesi Warty Pig.
- Conflict, violence, and warfare among early farmers in Northwestern Europe. Early sedentary agricultural societies were not exempt from violence, pets or no pets.
- The earliest cotton fibers and Pan-regional contacts in the Near East. At least early sedentary agricultural societies did all that fighting wearing comfortable cotton garments.
- How animal dung can help to reconstruct past forest use: a late Neolithic case study from the Mooswinkel pile dwelling (Austria). In between spells of fighting, early sedentary agricultural societies let their livestock roam the forest during the day but kept them in their settlements in winter, and that accumulates a lot of dung that can come in useful thousands of years later in working out what said livestock ate in said forest.
- Between Cereal Agriculture and Animal Husbandry: Millet in the Early Economy of the North Pontic Region. You didn’t need to be a completely sedentary agricultural society to grow Panicum miliaceum in the Pontic steppes.
- Opium trade and use during the Late Bronze Age: Organic residue analysis of ceramic vessels from the burials of Tel Yehud, Israel. There comes a time when a sedentary agricultural society will start growing, and then selling, drugs.
- A Sacred Tree in the Boreal forest: A Narrative About a Sámi Shaman, her Tree, and the Forest Landscape. You don’t need to be a sedentary agricultural society and grow drugs to have a rich spiritual life, but it’s harder — though not impossible — to document it.
- Historic samples reveal loss of wild genotype through domestic chicken introgression during the Anthropocene. Sedentary agricultural societies are polluting the genetics of wild species related to domesticates. The chicken in this case, the Sulawesi Warty Pig unavailable for comment.