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Posts under ‘biology’

Why to Celebrate the Publication of the Brachypodium Genome

Goes into four answers to why we should celebrate the publication of the genome of the fourth grass ever sequenced (sometimes referred to either affectionately or derisively as the Arabidopsis of the plant world), along with some pretty pictures of the plant itself and a little basic genome analysis.

MaizeGDB and CoGe: A Beautiful Friendship

Editor’s note: I have a new shorter, better, tutorial, here. One of the earliest fruits of my work to define relationships between syntenic genes* was a list of sorghum genes and corn genes in one or both of the two related regions of the corn genome (each region in sorghum corresponds to two in corn [...]

Scientists at India’s NIPGR Create a Longer-Lasting Tomato (Studying The Regulation of Fruit Ripening)

Author’s note: This would seem to be the week for vegetables I hated as a kid. Yesterday was onion, today tomato, if there’s a story about brinjal/eggplant in the next few days we’ll have hit all the big ones. I was recently pointed to an early publication paper that went up on the Proceedings of [...]

Some Evidence Suggests Trees Are Growing Faster

In a Proceedings of the National Academy of Sciences paper from this week that has been picked up across the popular press, researchers in Maryland report that the trees they’re studying are growing measurably faster than they “should” be. From US News and World Report: During the past 22 years CO2 levels at SERC have [...]

We got to genetics in class today and the story of the shrunken 2 gene

The origin story of shrunken2, the gene behind much of the sweet corn we eat today. Pictures of the phenotype of CAL mutants in arabidopsis (the gene I mentioned last week for its role in differentiating between broccoli and cauliflower).

First Day Teaching (epilogue)

The belated after-action report from my first day teaching, and a question about how to get people excited about learning the parts of a flower. For me, it was the ABC model of floral development, but both time and a lack of background in genetics prevent me from using that as my hook to draw students in.

Genome Sequencing vs Genetic Mapping

There was a recent paper in Science about the mapping of the Artemisia annua genome. I’ve seen several people interpret this as another genome sequence. It’s hard to blame anyone for this confusion given headlines like “Scientists map the maize genome!” to describe the sequencing of the maize genome. So what’s the difference between a sequenced genome and a mapped genome? I’m glad you asked!

The Newly Published Soybean Genome and Fractionation

Here’s the key statistic: The maize genome paper estimated that roughly a quarter of maize genes are currently retained as duplicate pairs from maize’s whole genome duplication, while the soybean paper estimates just over half of soybean genes are similarly retained after soybean’s (apparently slightly older) duplication. <– had it buried at the end of [...]

Strawberry Genome Sequenced (Correction included)

After already needing to correct this post, I must now invalidate the whole thing. Seems I’ve been taken in by a premature press release that was turned into reliable sounding articles on news sites and was then picked up by blogs like mine that took the those sites to be credible sources. It’s a big [...]

Feeding birds on a large scale can lead to speciation?

From The Hindu: Humans are inadvertently manipulating bird genetics by innocently providing birds with feeders in winter, according to findings by German researchers. Over less than 30 generations, birds visiting British and European gardens in winter have evolved different-shaped wings and beaks, the scientists say. In time, they could eventually become a distinct species. The [...]