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Field of Science
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Change of address3 months ago in Variety of Life
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Change of address3 months ago in Catalogue of Organisms
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Earth Day: Pogo and our responsibility6 months ago in Doc Madhattan
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What I Read 20247 months ago in Angry by Choice
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I've moved to Substack. Come join me there.8 months ago in Genomics, Medicine, and Pseudoscience
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Histological Evidence of Trauma in Dicynodont Tusks6 years ago in Chinleana
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Posted: July 21, 2018 at 03:03PM7 years ago in Field Notes
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Why doesn't all the GTA get taken up?7 years ago in RRResearch
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Harnessing innate immunity to cure HIV9 years ago in Rule of 6ix
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post doc job opportunity on ribosome biochemistry!10 years ago in Protein Evolution and Other Musings
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Blogging Microbes- Communicating Microbiology to Netizens11 years ago in Memoirs of a Defective Brain
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Re-Blog: June Was 6th Warmest Globally11 years ago in The View from a Microbiologist
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The Lure of the Obscure? Guest Post by Frank Stahl13 years ago in Sex, Genes & Evolution
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Lab Rat Moving House14 years ago in Life of a Lab Rat
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Goodbye FoS, thanks for all the laughs14 years ago in Disease Prone
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Slideshow of NASA's Stardust-NExT Mission Comet Tempel 1 Flyby14 years ago in The Large Picture Blog
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in The Biology Files
A plant pundit comments on plants, the foibles and fun of academic life, and other things of interest.
Weather Forecast - Snow
Clever names for plants, gardens, and the such
Science & Pseudoscience - Senior Seminar
Kauai - Botanical paradise?
Saturday fun - household chores
The things you can learn from feng shui
Berry Go Round #36
Over at Seeds Aside, the January round up of plant related blogs has just been posted. You're just sure to find some new blogs and lots of interesting posts so click on over for a look. The Phytophactor is grateful for having been included, and my worry mounts because next month's BGR is my responsibility. And since February is a short month let us hope all the northern temperate zone bloggers try to cure their cabin fever by postings lots of goodies.
Ice "Flowers"
Here's a pretty neat phenomenon that was brought to my attention a few years ago, and in looking for some interesting "flower" stories for posts, this came up again. So with permission of the owner, here's a teaser, an "ice flower" or actually more of an ice ribbon. More pictures and explanations of how they form can be found at this link. And if you like this, see the "frost flowers" here too.
Friday Fabulous Flowers - Alpine Tundra
My desk is wooden. Who knew?
Something we all need - TNT detecting plants
Whither comest new technology?
According to that always authoritative source the Onion the new MacBook is doing away with the keyboard, instead replacing it with the "wheel". This technological advance is intuitive, easy, dumb, and slow (see the demo). But something looked vaguely familiar about this, and from deep in my memory recesses an image emerged of a toy typewriter we had as kids. Like the Onion's MacBook it used a wheel; the keyboard was fake and you had to dial up each character, one at a time, and then print to to the paper by hitting the "type" button. So at least one of the Onion's writers must still use one of these.
Alpine tundra meadow
Another frightening news article about wine grapes
Alpine tundra in the Rocky Mountains
Ancient Beer
New Record - 85 degree shift
Stock Market Sausage Sunday?
No escaping upward
Islands in the sky
Islands have many biological oddities because the organisms there are isolated from those on the mainland and this can have many consequences. Unless you are a biologist you probably don't think about mountains tops and the species living there as islands yet they are. One question of interest is determining how much gene flow exists between populations on different islands, and one of my colleagues, Andrea Kramer, has been examining this by looking at bumblebee (see image) and hummingbird pollinated penstemons, and she found that the bee-pollinated species were more distinct mountain to mountain. This means as you may suspect that birds are better at moving genes greater distances than bees. Genetic diversity on mountain top islands is a particularly critical thing to study because a warming climate pushes alpine species higher, and if the mountain isn't tall enough, that population become extinct, and the islands getter smaller, fewer, and farther apart. Islands in the sky may be one of the places where climate change results in the loss of a lot biological diversity especially those that are highest, the inhabitants of alpine tundra. As a change of pace, alpine tundra will be featured in a few upcoming blogs.
Get some culture
To the people the Phactor works with day to day, get some culture means getting a petri dish out of an incubator. But while surrounded by many cultural philistines the Phactor is a patron of the arts, an appreciation developed by minoring in art while majoring in biology. Probably because artists and biologists dress more alike than any other two disciplines, their only strong similarity, no one really noticed this fellow slipping back and forth. If you've never had to move to have more wall space, then you aren't an art collector. Why Ms. Phactor recently had a lighted case built to display the art glass. So every now the science is put on pause to call attention to an artist's work, especially if of a botanical bent. This came to my attention from another science blogger, so a big HT to Bioephemera. Linda Behar constructs photo realistic embroideries that are simply wonderful, and it is no accident the there is a Monet-like quality to some of the images as you will discover while exploring her gallery. Truth be known, several years ago while searching the web for articles about waterlilies (the kind of thing like yesterday's Friday Fabulous Flower, and yes, it's Friday again!) up popped a surprise, an art gallery link, and this resulted in the purchase of a painting of waterlilies. So why not also mention that an artist is a new Phactor Phollower, and you can see her gallery here. Welcome.
Friday Again
Missed a land mark - 500th blog
Friday Fabulous "Flower" - A Basal Angiosperm
Seed catalog addiction - look for the symptoms
Important science - Wine Grape Genetics
The research that made Louis Pasteur famous originated with a government commission to find out why wine was spoiling leading to the discovery that things like spoilage and infections, and indeed fermentation itself, were the direct result of the metabolisms of invisibly small organisms. It's good that many scientists are focused on the public good as the driving force of their research, and this report from the proceedings of the National Academy of Science is downright scary. If grape breeders don't get busy and inject some new genetic diversity into the gene pool of wine grapes, the whole industry could be in trouble. When Mrs. Phactor, a wine survivalist, hears about this, the wine cellar which now only holds 120 or so bottles will have to be greatly enlarged. You begin to worry about the end of civilization coming when and your supply of wine being only 100 bottles or so. After all it'll take a couple of years to get your own winery going. This genetic study indicates that early in the domestication of wine grapes, some 6000-8000 years ago (this study's molecular clock suggests wine grapes arose 5000 years ago) whatever stock was successful became sort of a genetic bottle neck, a small subset of the wild grape genome, and modern varieties all trace to back to this source. Various diseases resulting from their wide-spread cultivation are catching up and the only chance of the wine industry lasting another 5000 years is to breed in new disease resistance. Worries like this can ruin your sleep. And it's probably true for any number of other domesticated plants too. Even worse when the crop is propagated asexually, like the poor Cavendish banana that is so beset with disease that you may as well kiss the most popular banana of the northern temperate zone goodbye. Fortunately better bananas exist, they just aren't part of the cultivated banana industry, although a few other varieties are beginning to appear in our markets. And this is why so much more research is necessary on the origins and domestication of those plants that feed people. And why students need access to basic botanical education, which has been systematically downsized in the USA in favor of human-biomedical biology. Why should people be impressed by physicians and befuddled by botanists. Botany what? Oh, yeah, on that great scale used to decide worth in our culture, salary, physicians get paid about half of what botanists are actually worth. Doesn't the Phactor wish. Come on! Wine! This is life and death stuff here!HT to AoB blog.
Fun with English
Do the student shuffle
My Darling Clementines
Fighting the Winter Doldrums
Tropical biologists really suffer through the winter season unless somehow, someway enough time and money appears to work in the lower latitudes. So frequent reminders are needed to keep spirits up, and spirits themselves help too, although my preferences certainly are different seasonally. My university has this crazy idea that classes should be held, and faculty should teach them, during the winter months. It is only for the lack of resources that my classes are not conducted abroad as they should be and occasionally are. This is pretty view from a quite old picture taken on one of my first tropical research trips. Coconut palms growing along a river in the land of coconuts, Kerala. Most of these will be floated down river and used for fiber (coir). Feeling better?
Is your character changing?
The Sound of Silence
Botanical quest - daun salam
What a botanical challenge for a Saturday in mid-January here in the center of North America. The recipe we must cook for this evening's meeting of our dinner club is opor ayam (braised chicken in coconut cream sauce). Nothing quite like a pleasantly spicy tropical feast for a winter dinner! But the recipe call for daun salam and even with my considerable knowledge and experience with Asian spices and cooking condiments, this is a new one because so far my travels have not included Indonesia, much to my regret. Daun salam is the Indonesian equivalent of our bay leaf (Laurus nobilis, Lauraceae), but one cannot be substituted for the other as they are very different plants and very different flavors. So now where to find Eugenia (Syzygium) polyantha (Myrtaceae)? This will be quite a challenge and no viable substitute exists. In all truth our club members, even as semi-sophisticated lovers of cooking and good food, will probably be unable to tell whether or not the recipe contains daum salam or not because it is probably new to all of us. So off to the Asian grocery shoppes we go. And don't tell anyone, but some kaffir lime leaves and lemon grass may go missing from the university greenhouse!
Mostly Unicellular
Friday Fabulous Flower – At the Stage of Seed Dispersal
This isn’t precisely a flower, but then again it is a flower at the stage of seed dispersal, but a very pretty and unusual image the result of having gelatinous seed coats. This also isn’t exactly a common plant especially when viewed this way. So who recognizes this very nifty image?
Food Chain at Breakfast
Student Evaluations - Yawn.
So imagine what someone has discovered? ""Hard" instructors seem to do better at preparing students for upper-level work, even though the grades may be lower and student-evaluation scores weaker in those classes." Duh! And guess who the "hard" instructors were? Oh yeah, permanent senior faculty who aren't worried about evaluations deciding their future employment! Fortunately my bosses have never placed an over reliance on student evaluations, but at institutions where student evaluations reign supreme you select for easy, sometimes even pandering instructors, except for some very very few faculty who can be both hard and popular. This is the great failing of junior colleges; faculty careers live or die based upon whether you please your students. Lincolnland has a great many junior colleges and their graduates show up in my classes as 3d year students, and about 50% still have poor study skills and poor work ethics, so they sort themselves out quickly even though most sport quite good grade averages from their junior college. This is also a failing at uber-elite institutions where you cannot fail. Give an uber-elite student for whom admission was their last academic hurdle a C, even for no effort at all, and mommy & daddy dearest who pay that awesome tuition initiate the cascade of complaint that ends up with a dressing down of the presumptuous faculty member, who had better have tenure. At our great public institutions students are free to fail, and that's why the grades of our top students actually mean something. Oh, even our institution has it's soft underbelly of disgraceful grading (8 out of every 10 students in every single course in music get As!). Sure, never a sour note. Unfortunately our current provost would be better suited for work at a junior college, so one must always be on guard. One day all of that paper filed away will be recycled as garden mulch and smart money says the plants will grow great.
Beer - The Natural Selection
Nothing quite like a nice cold beer, and one nice thing about the microbrewery revolution (prior to this the USA was down to just 37 breweries), is that naming and labelling all these different beers has generated a great deal of creativity, e.g., Coal Porter (Atlantic Brewing Co.), Polygamy Porter (Wasatch Brewery), Druid Fluid (Middle Ages Brewery), and so on, but frankly the Phactor is not an expert having sampled no more than a couple of hundred microbrews (over the years - with the data to prove it). But still you know you've made it scientifically when someone brews one especially for you. And what better to celebrate Darwin Day and guest lecturer Richard Dawkins than Evolution Ale from the Darwin Brewery of course (Is it located in Downs? No, in Sunderland near Mowbray Gardens. Planners of botanical geek tours take note.). The recipe comes from a long line of beer recipes, with modification. HT to Pharyngula.
Primate Brain and Snakes
A Mirror on American Culture
Monday Morning Musings - A new semester begins
Unsustainably stalking the wild asparagus
Why in blue blazes do we need this?
One of the reasons people love to look through seed catalogs is to see what’s new. Although not actually new, Briggs Nursery introduced this 2 years ago, it just didn't register until the 2011 crop of seed catalogs. One item raises a question. Why in ever lovin’ blue blazes do we need pink blueberries? This is one of those things that you have to wonder why spend the time and effort to breed a pink blueberry? Did they discover this while waiting for these berries to finally ripen, and they just never did? Perpetually unripe berries, wow! Oh, no, is this is another example of the trouble our country is in? John Birch wouldn’t like this one bit, creeping commie pinko fruits invading our ‘mercan pie crusts. Way to go Briggs; you on a list now. We'll be keeping an eye on you and your little dog too.
Friday Fabulous Flower - Yellow Walking Iris
Plants deep in thought?
it absolutely fascinating that scientists are finally starting to consider plant sentience a serious possibility. The idea of plant communication is not entirely new, and has been an integral part of some spiritual practices. So, if plants are capable of communicating with each other, and understanding whether those around them are family or not, can they also feel pain? And if they can feel pain, do their relatives hear their screams when they are cooked or eaten? I think the idea of plant sentience may put a whole new perspective on things for some people. It would seem that if plants are capable of the same things as animals (realization and communication), that eating a carrot would be no different than eating a chicken leg, as both come from beings that display awareness. It certainly gives you something to think about.
What a great example of anthropomorphic thinking. This isn’t new; consider the legends surrounding mandrake, whose name is basically a synonym of anthropomorphic, but nothing about plant communication suggests plants have any such higher animal attributes. Plant communication is not equal to plant sentience; organisms can “communicate” without having any awareness in the usual sensory sense of the word because plants don’t have sense organs or a nervous system, so the concept of pain seems misplaced as well. Seriously, do you actually think a head of cabbage screams in pain as you colely slice it into slaw? Sorry but that's just cabbage-headed. Does a plant grow toward the light because it “loves” the feeling? Do roots grow down because they enjoy the tug of gravity? Is the color yellow happy? When you google plant sentience, you will notice one interesting thing. The people discussing this idea are not botanists or horticulturalists.
Part of the problem is the semantic baggage associated with words like “communication”. Plants react to stimuli, and some of those stimuli are molecular plant signals. Dodder is a parasitic vine that “tastes” its hosts and grows such that it can find and put more parasitic taps into better hosts, but it isn’t thinking yummy thoughts (see this link for some images and a similar discussion). Why do reasonably smart people engage in so much new-agey fuzzy thinking? Taking concepts like sentience and expanding it to a concept where it is synonymous with being alive, i.e., capable of reacting to a stimulus, doesn’t help anyone understand anything. If ever there were a group of people with this problem it’s the founders of the Society for Plant Neurobiology, a new discipline with nothing to study but plant signaling, and plant physiologists and cell biologists were already doing that, and many chided their colleagues for using “superficial analogies and questionable extrapolations”. The use of such terms as plant neurobiology must be regarded as an attempt to make more of a phenomenon than it presently deserves, and it doesn’t assist with the public’s understanding of science one tiny wit as Heidi so well demonstrated. The Phactor has spoken at length with my pal Phil O'Dendron, but he hasn't had much to say, and that says a lot.
Harness Your Body's Green Power!
Do you want to garden better and longer? Do you want your garden work to be enhanced? Do you want to align your body’s own natural energy field so it can be transferred to plants and accelerate their growth? Do you want to wipe the sweat from your eyes? Garden Green Power™ wrist bands are for you!Our Garden Green Power wrist bracelets are “based on the idea of optimizing the body’s natural energy flower… They are designed to resonate with and respond to the natural energy field of the body” and to soak up sweat which if it rolls into your eyes can really scroll your nerd and disturb your wa.
Garden Green Power wrist bands can be yours for a ridiculously low introductory offer of $14.95 for the pair (one for each wrist). A new product, Green Power Anklets™ are being developed so that every where you place your foot the grass will grow greener. This was discovered by a user of Garden Green Power wrist bands who liked to walk on their hands, and it took awhile for our product development team to devise a more practical solution for better lawns, particularly if you have a dog. Plant people everywhere will soon be clamoring for Garden Green Power, so be the first to go green naturally. Order yours now!
These wrist bands do actually perform one of the four claims; can you guess which? Who falls for this stuff? A click on the link will show you that the answer is for one, jocks, and if you can't flimflam them out of $29.95 by telling them it works with "the natural energy field of the body", well, you need to be in another business, but could the Phactor fund his research by setting up the Green Power Foundation to launder the proceeds? When the energy is properly aligned the unethical mind boggles, and the gullible get fleeced.
The Plant List - Name that plant!
What is a rare plant?
End of Times Garden Planning - Pre and Post Rapture
Time to update my taxonomy and YOURS: part 2
A reader has asked the Phytophactor “why seed plants evolved into monocots and dicots?” This question actually can’t be answered because science is not very good at answering WHY questions. This question is even more difficult to answer because flowering plants can no longer be simply divided into monocots and dicots, and it would be wrong to say they evolved into monocots and dicots. This is because phylogenetic studies tell us that monocots (Liliopsida) evolved from a common ancestry with dicots, and as a result, they share many characters with basal angiosperms. However, dicots no longer form a single lineage, the requirement for being recognized as a taxonomic group. The rest of the groups shown in this simplified phylogenetic diagram are dicots, except for the outgroup, gymnosperms, but even some gymnosperms share the character of having two cotyledons. So dicots, a lineage of plants with two cotyledons, does not.None of this tells us why such groups evolved. Flowering plants presumably were more successful in many habitats than other seed plants. This may be attributed to many things, not the least being their interactions with animals involved with pollen and seed dispersal, although cycads use both as well. Why monocots evolved cannot be answered other than to say a set of modifications in the ancestors of this lineage were successful and plants with these characteristics proliferated.
The second part of the answer is that the taxonomy of flowering plants is far more complicated than monocots and dicots. Even this diagram does not reflect many of the newest findings or even show all the lineages (it was just handy), but it shows the general organization and gives examples of familiar plants. The ANITA grade is a series of basal lineages now just called ANA as some new relationships have combined what were separate lineages. The label refers to their names (e.g., A is for Amborella, N is for waterlilies, A is for Austrobaileyales), and the AA lineages have two cotyledons while the waterlilies only have one. The eudicots (eu- means true) all share a particular type of pollen. So, although this is not reflected in formal taxonomies because of the difficulty of translating such knowledge into the traditional taxonomic framework, flowering plants consist of the following groups/lineages: three lineages forming a basal ANA grade, monocots, the magnolids, and the eudicots. Even this is simplified, but next spring the Phactor will be teaching plant taxonomy.