- Assessment of genetic relationships between cultivated arracacha (Arracacia xanthorrhiza Bancr.) and its wild close relatives in the area of domestication using microsatellite markers. Lots more variation in the wild, natch.
- Exploring Relationships between Biodiversity and Dietary Diversity in the Mediterranean Region: Preliminary Insights from a Literature Review. There has been an increase in dietary diversity, but of the wrong sort of diversity.
- Special issue Of Small Ruminant Research on “Genetic diversity of small ruminants in Asia”. From the Punjab Urial sheep to the goats of Myanmar.
- Genetic diversity of flax accessions originating in the Alpine region: a case study for an ex situ germplasm evaluation based on molecular marker. Past genebank conservation hasn’t been perfect.
- Enhancing genetic gain in the era of molecular breeding. It all starts with genetic variance. Hello, genebanks!
- Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform. Factor in gene editing and goodbye genebanks.
- Unconscious selection drove seed enlargement in vegetable crops. And not only vegetables, cereals too. But remember African rice?
- Palm economic and traditional uses, evolutionary history and the IUCN Red List. Globally, the more threatened palms are the less used.
- Impact of Climate Change, Weather Extremes, and Price Risk on Global Food Supply. The effect is not just on production, but also price.
- Identifying the landscape drivers of agricultural insecticide use leveraging evidence from 100,000 fields. In Kern County, California, crop diversity decreases insecticide us. But…
Some new germplasm databases, at least to me
Long-time readers may remember a post from 2012 summarizing some media reports of trouble at the Italian national genebank at the National Research Council (CNR), Bari. But maybe things are not as bad as were made out at the time. Or have got better.
I’ve just come across what seems to be a fairly new website for the genebank and it doesn’t give the impression of crisis. It lists 57,568 accessions from 184 genera and 834 species, which is more that was reported back in 1999 in WIEWS for ITA004, hopefully the correct code for the genebank in question (at least the address matches, if not the name of the institute). This is the geographic coverage of the collection:
Impressive. Unfortunately, data on these accessions are not available in the European genebank database, Eurisco, and therefore they’re not in the global portal, Genesys, either. Hopefully that’s being rectified.
Since I’m on the subject of germplasm databases, I’ve also recently come across the Legume Information System, which focuses on material in the US genebanks. It has all kinds of data, but I just looked for germplasm from Italy to compare with what’s in Bari. Here’s the map for Medicago spp, showing growth habit in different colours (click on it to see it better).
Compare and contrast with the ITA004 collection for the same species.
Which is why it’s a good idea to have all these data together in one place, i.e. Genesys.
Seed banking resources
Did not realize that BGCI have a very useful Seed Conservation Hub on their website where they have collated resources and provided training modules on the basics of seed banking (in 4 languages).
Unique digital identifiers everywhere
A recent letter in Nature:
Members of the Consortium of European Taxonomic Facilities have adopted a consistent citation system for an estimated 20 million biological and geological specimens from European collections. We encourage researchers, publishers and other institutions to engage with this initiative by citing the full specimen identifier in their publications and data sets. These specimens provide reference material for research on evolution, genetics, mineralogy, ecology and taxonomy — hence the need for a reliable identification system for citation (see A. Güntsch et al. Database 1, bax003; 2017). Our system assigns a unique and permanent Uniform Resource Identifier (URI) to each specimen. It follows Linked Open Data principles (see www.w3.org/tr/ld-bp) by including a redirection facility to human- and machine readable representations of the specimen. It also gives credit to the collectors and custodians. For example, the alpine plant specimen Leptinella scariosa Cass., held by the Royal Botanic Garden in Edinburgh, UK, and collected in Chile by Charles Darwin in 1834, is referred to by the URI http://data.rbge.org.uk/ herb/E00070244.
Quentin Groom, Botanic Garden Meise, Belgium.
Roger Hyam, Royal Botanic Garden Edinburgh, UK.
Anton Güntsch, Botanic Garden and Botanical Museum, Berlin, Germany.
Genebanks are doing something very similar.
Nibbles: Apple edition
- A new, better apple genome. I thought once it was done, it was done. Clearly not.
- An FBI agent on the tracks of old apples. No need for high quality genomes.
- Getting to the bottom of the Honeycrisp.
- It’s the rootstocks, stupid.
- What made Milwaukee famous is not heirloom apples, but still.
- Let’s not forget the crab apple, shall we?