- VIR on Atlas Obscura, with pic goodness courtesy of yours truly. And on the same site, something Vavilov would have approved of: a very diverse Tajik apple orchard.
- A new avocado to conjure by.
- Urban agriculture won’t cut the mustard.
- Trees that named Fragrant Harbour disappearing.
- The downside of coffee. But never fear, there’s a strategy coming!
- The beernome!
- Happy birthday Sir Hans Sloane, for many botanical reasons!
- Chinese pollinators in trouble. Enough of the exclamation marks.
- Do you have any examples of “plant or animal breeding that has successfully incorporated gender considerations into its strategies and end products”? Contact these people.
- Can seeds learn from meds, policy-wise?
- Bioversity DG lobbies for genebanks.
- Get your fill of quinoa, courtesy of Jeremy.
- Sustainable pot. ‘Cause that’s the California Way, man.
Brainfood: Bean drought, Tree ranges, Lao rice landrace, Japanese wheat core, Japanese rice quality, Brassica diversity, Prosopis variety, Teff diversity, Agroecosystem diversity & resilience, Grassland spp adaptation
- Physiological traits associated with drought resistance in Andean and Mesoamerican genotypes of common bean (Phaseolus vulgaris L.). Maybe more common in the Mesoamerican genepool, and associated with pod harvest index.
- Estimating potential range and hence climatic adaptability in selected tree species. It’s better if you have trial results.
- Genetic diversity and population structure of ‘Khao Kai Noi’, a Lao rice (Oryza sativa L.) landrace, revealed by microsatellite DNA markers. More variation between than within accessions of same landrace, three genetic groups, and a possible origin in Vietnam.
- Characterization of a mini core collection of Japanese wheat varieties using single-nucleotide polymorphisms generated by genotyping-by-sequencing. Core collection of 96 accessions based on passport and pedigree data turns out to reflect geography and breeding history.
- Variation in cooking and eating quality traits in Japanese rice germplasm accessions. Mainly down to one gene.
- Population genomic analysis reveals differential evolutionary histories and patterns of diversity across subgenomes and subpopulations of Brassica napus L. Spring (SP), winter Europe (WE), and winter Asia (WA) groups, enriched genetic diversity within the WA group, different geographic origins for the C (WE) and A (WA) subgenomes.
- Molecular markers to distinguish ‘Thar Shoba’, a variety of khejri [Prosopis cineraria (L.) Druce], from trees in natural populations. Since the thing has a great morphological marker in being spineless, I don’t really see the point of going all molecular on it, but anyway.
- Assessment of the genetic relationship of tef (Eragrostis tef) genotypes using SSR markers. Molecular markers confirm distinctness of agronomically distinct varieties.
- Linkage between crop diversity and agro-ecosystem resilience: Nonmonotonic agricultural response under alternate regimes. Crop diversity increases productivity during normal conditions, decreases it in adverse conditions, increases the likelihood of staving off an adverse regime.
- Genetic differentiation and regional adaptation among seed origins used for grassland restoration: lessons from a multispecies transplant experiment. Local is best. At least in Germany.
Nibbles: Sapote taste, Coffee breeding, Genes to ecosystems, Medicinal trifecta, Ganja, Aboriginal fire, Lupins, Endophytes, Oil algae, Schultes maps, Yeast diversity, Bees & diversity, CSA
- You know you want to try black sapote.
- Podcast on how to save coffee. And it probably needs it.
- Once we’ve saved the cultivated species, maybe we should save it in the wild as well?
- If not, there are other species, other drugs, I guess. No, really.
- Indigenous fire management in Australia.
- Everything you need on lupins. You’re welcome.
- Is anyone collecting endophytes? Or microalgae for that matter?
- Marvellous interactive atlas of the botanical collecting of Richard Evans Schultes in the Amazon.
- Wine yeasts are way inbred. Which can’t be altogether good.
- Watermelons need flower diversity.
- One does feel for climate-stupid varieties.
Brainfood: African greens, Latin American pigs, Japanese fruits, Cassava selection, Sunflower breeding, Angolan vegetables, Californian backyard maize, Mesoamerican priorities, Genetic stocks
- Molecular Markers for Genetic Diversity Studies in African Leafy Vegetables. Not surprisingly, only 3% of 33 studies since 1998 are on Cleome, more than half on cowpea. And a quarter used RAPDs. Orphan crops, anyone? These one don’t even get a table summarizing and comparing findings across species.
- Conservation priorities of Iberoamerican pig breeds and their ancestors based on microsatellite information. Depending on how you crunch the genetic numbers, Iberoamerican pig breeds could conceivably best be looked after by conserving their ancestral Iberian pig breeds. But it’s not just about the genetics, is it?
- Native fruit tree genetic resources in Japan. Only a Castanea was domesticated in pre-modern times, and they’re all endangered in post-modern times.
- Perceptual selection and the unconscious selection of ‘volunteer’ seedlings in clonally propagated crops: an example with African cassava (Manihot esculenta Crantz) using ethnobotany and population genetics. It’s seedlings that look most like existing varieties that farmers try to keep.
- Changes in sunflower breeding over the last fifty years. From yield under optimal conditions to disease resistance, from oil quantity to quality. But international collaboration still needed.
- Angolan vegetable crops have unique genotypes of potential value for future breeding programmes. Unique material documented, and hopefully made available for use.
- Maize Germplasm Conservation in Southern California’s Urban Gardens: Introduced Diversity Beyond ex situ and in situ Management. Migrants bring along their crops.
- An assessment of the conservation status of Mesoamerican crop species and their wild relatives in light of climate change. Priority areas for on farm and in situ conservation don’t by and large coincide with protected areas.
- A Proposal Regarding Best Practices for Validating the Identity of Genetic Stocks and the Effects of Genetic Variants. Just do it.
Fancy maths meets haystack
One of the authors, Michael Mackay, tells us about a new book that is sure to set pulses racing.
A question anyone involved in crop improvement — breeders, pre-breeders, genebank managers, genetic resources experts of all hues — has invariably asked is: where can I find some new genetic variation to overcome this nasty new problem that’s hammering productivity in my region? We all know there is an enormous reservoir of plant genetic resources held in ex situ or in situ around the globe. To use a cliché that’s been much used but never bettered in this context: it’s all too often like looking for a needle in a haystack. Sure, molecular biology is increasingly predicting, and occasionally even delivering, a more rapid pathway to identifying and using those elusive new genes or alleles. But are we making the best possible use of the information that’s out there already?
Enter Applied Mathematics and Omics to Assess Crop Genetic Resources for Climate Change Adaptive Traits. This book, just published by CRC Press, applies the latest statistical techniques to explore plant genetic resources data of all different kinds. The aim is to help researchers create manageable, trait-specific, sub-sets of germplasm. These should end up being best-bet candidates for evaluation and further research. Think of core collections, but skewed towards — enriched for — particular traits, rather than efficiently covering diversity overall. Think of a smaller haystack with a much better chance of containing that needle.
While the book proposes a general conceptual mathematical framework for exploring how different data can be used to estimate the likelihood of specific variation existing within a given accession, there is a particular focus on climate change. It includes discussion of how genetic resources can be used to mitigate and adapt to climate change, and how different plant traits are likely to become more important as the climate changes.
So, as genebanks accumulate information on their germplasm — making the haystack ever bigger — and plant breeders come up with ever better ways to use that elusive needle, this book identifies an opportunity to bring these two communities together in the cause of adaptation to climate change. The maths needed to facilitate a more effective ‘mining’ of novel genes and alleles from the world’s genebanks is certainly fancy. But this books puts it within the reach of anyone with a computer. Or a pitchfork.