- Deconstructing the colour of tomatoes. h/t @kctomato
- INBio folds? Or (h/t Jacob) government takes responsibility?
- Discussion on whether natural history specimens are necessary.
- So there’s a place where you can record your plant lore. No word on whether that’s linked to specimens.
- Yellow skin in chickens is a recent trait. Specimens involved. Part of that PNAS special feature on domestication.
- What have bees ever done for us?
- Edible flowers not just for pansies.
- Australia funds World Veg to research urban veg in Africa.
- Remember how we included in Brainfood a few months back a paper linking tree cover with dietary diversity and fruit/veg consumption in Africa? Well, here’s the PowerPoint.
A one-step approach to clarify the origin of crop species
We asked Dr Dan Brock to break down his paper on the domestication of Jerusalem Artichoke. Thanks, Dan. Sandy Knapp has also had her say on this. Who needs the full text of papers these days.
Identifying the wild progenitors of crops is one of the key steps we have to take if we are to effectively harness the diversity maintained in the world’s genebanks. This information can and should be used to fuel efforts to increase the productivity and sustainability of modern agriculture. In the case of allopolyploid crop species, which are formed by a combination of interspecific hybridization and genome duplication, this information is also of technical significance. In these systems, a major obstacle in the way of genome-scale surveys of genetic diversity is the fact that variation occurring between the progenitor-derived sets of chromosomes cannot be discerned from variation occurring within each chromosome set. In a recent publication in the journal New Phytologist ((Bock DG, Kane NC, Ebert DP, & Rieseberg LH (2014). Genome skimming reveals the origin of the Jerusalem Artichoke tuber crop species: neither from Jerusalem nor an artichoke. The New phytologist, 201 (3), 1021-30 PMID: 24245977)) we highlight a one-step approach that can be used to clarify the origins of previously intractable polyploid complexes, using Jerusalem Artichoke as an example.
The Jerusalem Artichoke (Helianthus tuberosus) is a culturally and economically important tuber-producing hexaploid whose origin has long fascinated botanists. Despite prolonged interest, the evolutionary history of this species has, until recently, remained a mystery. Different hypotheses have so far proposed the annual sunflower H. annuus as well as numerous other congeners as its likely progenitors. We tested these competing scenarios using the genome skimming approach. ((Also called “shallow sequencing,” referring to the number of times a nucleotide is read during the process.)) One lane of Illumina sequencing generated sufficient data to reconstruct complete plastid genomes, partial mitochondrial genomes, as well as partial 35S and 5S nuclear-encoded ribosomal DNA for the Jerusalem Artichoke and its candidate progenitors. Analyses performed using these data provided unprecedented resolution for this group, which is notoriously difficult to resolve using phylogenetic inference. Our results showed that the Jerusalem Artichoke originated repeatedly via hybridization between the Hairy Sunflower (H. hirsutus), which likely served as the maternal parent, and the Sawtooth Sunflower (H. grosseserratus), which likely served as the paternal parent.
The advent of new sequencing technologies has made ever-increasing portions of the genome available for investigation, with ever-decreasing investment in researcher time and effort. We are therefore in an ideal position: we can use these breakthroughs to resolve the origins of crops like the Jerusalem Artichoke whose unclear ancestry has, until now, hampered evolutionarily-informed germplasm preservation and genome-enabled progress.
Nibbles: Diverse diets, Ancient diets, Urban veggies, Medicinal phylogenetics, Double blind cowpeas, Adaptation hope, Livestock emissions, Climate change data, Afghani poppies, Aussie ag & breeders, Chinese agrobiodiversity, Weird cherry
- Meaty presentation on how biodiversity in the food system delivers a diverse diet. Could hardly fail to, really, could it.
- What’s a diverse diet ever done for me, asks ancient farmer.
- Vegetables an important part of diverse diets, of course. Especially in urban areas.
- Interesting EU project on the phylogenetics of medicinal plants. Any vegetables in there?
- Improved cowpeas only improved when farmers know they are improved. Wow.
- Some glimmers of hope on adaptation? Maybe.
- Not all livestock bad for climate change. And room for improvement on those that are.
- Yeah, but who cares, global warming is just a giant natural fluctuation, no? No.
- Legalize it, already! Poppy cultivation as a climate change adaptation measure?
- Australian agriculture unprepared for climate change? With all these fancy breeders and access to the world’s genebanks?
- Meanwhile, in China, the focus is on food sovereignty.
- And in Japan on its spaced out cherry tree.
Nibbles: Forests and food, Baobabs
- “Will Increased Food Production Devour Tropical Forest Lands?” A long condensed version of an even longer answer.
- Baobabs hybridise rather freely. Time to edit all those factsheets?
Nibbles: Sustainability, Cattle domestication, Grain domestication, Peanut genome, Peanut breeding, Seed systems, Food prices, Climate stuff, Aid
- Sustainability and wildcrafting; not overharvesting frankincense, or anything else.
- Another take on cattle domestication.
- And the spread of ancient grains.
- Everyone wants to take credit for the peanut genome …
- Learn why that’s a good thing courtesy of the Generation Challenge Programme.
- A new website to ensure that seed aid after a disaster is not itself a disaster.
- Ah, the joys of walking the policy tightrope: Higher food prices are good for the poor … in the long run.
- Nice piece from the data nerds at 538: Can Evolution Outrace Climate Change?
- On a related note, can Bioversity outrace the IPCC?
- “The US Agency for International Development (USAID) today announced the launch of its US$100-million Global Development Lab in Washington DC — a move that will elevate the role of science at the agency.” WCPGW?