Monday, April 30, 2018

it's complicated

Open Archive Day

The evolutionary history of our species used to be simple due to the scarcity of data. We had about seven data points and drew a squiggly line to connect them and that was that (maybe I'm simplifying this slightly). Now we have genomes of modern and archaic humans, Neanderthals and Denisovans, increasingly documenting migrations and admixture, so it's getting more complicated as there are so many dots to connect. Plus, finds in Asia could still undermine the whole out of Africa thing.

A year ago, I had a closer look at fresh palaeoanthropology from China, but I suspect things are changing so fast I may have to rewrite this account pretty soon. Anyhow, here it is again, on open access, enjoy it while it is still more or less true:

A new continent for human evolution




A collection of 47 human teeth discovered at Daoxian is anatomically modern yet surprisingly old. (Photo: S. Xing and X-J. Wu.)

Monday, April 23, 2018

weird membranes

Today's issue of Current Biology contains a special section on membranes, and my contribution to that is a feature investigating why the membranes of archaea are so weird (sorry, different from all other membranes). Back in the 90s, I did my PhD work next door to Karl Otto Stetter's Archaea Centre at Regensburg, so it was a bit of a nostalgia trip, but I also learned lots of new things about their evolution.


Archaea cloaked in mystery


Current Biology Volume 28, pages R372-R374, April 23, 2018



FREE access to full text and PDF download





Archaea represent a unique life form whose complexities science is only beginning to understand. Researchers in Regensburg and Munich, Germany, are studying the functions of cellular appendages such as the flagella-like archaella of Methanocaldococcus villosus. (Image: Gerhard Wanner, Ludwig-Maximilian University Munich.)

Friday, April 20, 2018

romance of wikipedia

I've been slightly obsessed with Galician and some other Romance languages recently, which must have been a side effect of being exposed to and then inheriting the admin of the amazing Galician Session Oxford. I discovered that the Galician version of Wikipedia is quite amazing (considering the number of speakers of the language), so I looked up some other Wiki versions in Romance languages with a view to use one or the other as study aids, and found that their sizes don't necessarily scale with the numbers of speakers:

1 000 000 +

Français 1 975 000+ articles

Italiano 1 430 000+ voci

Español 1 404 000+ artículos

100 000+

Português 997 000+ artigos

Català 577.879 articles.

Română 385.164

Galego 147 109 artigos.

Latina 128 288 paginarum


10 000+


Occitan 84 312 articles
Asturianu 74 671 artículos
Piemontèis 64 327 artìcoj
Aragonés 32 946 articlos
Sicilianu 25 949 vuci
Nnapulitano 14 516 artícule
Vèneto 11 145 voxe

1 000+

Corsu
Emigliàn–Rumagnòl
Lìgure
Malti*
Mirandés
Picard
Rumantsch
Sardu

* NB: I realise Maltese is a semitic language, but half its vocabulary is of romance origin.



Image: Wikipedia

Monday, April 16, 2018

zoo research by numbers

Open Archive Day

A recent paper claims to be the first to have quantified the scientific output of zoos and aquariums:

Quantifying the contribution of zoos and aquariums to peer-reviewed scientific research



which reminded me of my own more qualitative effort from 2015, which is now in the open archives:

Can zoos offer more than entertainment?



Zoos and aquariums are facing criticism for keeping animals in captivity under conditions that might not always match their requirements. (Photograph: Mike Peel www.mikepeel.net.)










Monday, April 09, 2018

seven years

Open Archive Day

From around 2000 until early 2011, I used to write occasional short to mid-length "news focus" or "news feature" pieces for the front pages of Current Biology. After a slight revamp of those pages in early 2011, the editors asked me if I could do a full length (2000 words) feature for every isssue, i.e. two per month, and I accepted the challenge.

If I have got my maths right, I have now published 167 of these features, so I must have been getting some things right. I only missed 3 issues I think, in 7 years. Here's the first one that appeared in the new format, seven years ago, covering a topic I have dealt with multiple times before and after, and like everything else from the first six years, it's in the open archives):

New fears over bee declines




(Own photo.)

Monday, April 02, 2018

mind Africa's genomes

Africa has been left behind by much of modern biomedical science and biotechnology, so it is always good to see when new initiatives aim to spread the benefits to this continent, as the newly launched NeuroGAP and NeuroDEV programmes for psychiatric genetics do. However, one also has to watch out very carefully, not to create the impression that Western scientists extract samples and scientific insights from the continent in a one-way system. Empowering local scientists and building capacity in situ have to be important parts of any such projects.

I've tried to gain a balanced perspective of all this in my latest feature, which is out now:

Mind the genome diversity gap

Current Biology Volume 28, Issue 7, 2 April 2018, Pages R293–R295

FREE access to full text and PDF download




Sites in South Africa, Ethiopia, Kenya and Uganda are involved in the projects.
Credit : Susanna M. Hamilton, Broad Communications


Monday, March 26, 2018

robot revolution

As the dangers of internet bots and self-driving cars have been in the news, the mechanical robots with arms that move around things are almost looking oldfashioned, but it is all part of a big technology move that creates independently acting beings, and we will have to think about how they fit in (without running over pedestrians). This is the topic of my third feature on robots, which is now on open access:

How will robots integrate into our world?

My previous efforts (also in the open archives) are here (2015) and here (2013).




Own photo, taken at the robots exhibition at the Science Museum, London, in Feb 2017.


Saturday, March 24, 2018

time interrupted

review of

Hora zulú
by Santiago Lopo
Editorial Galaxia 2016 (in Galician)
Mar Maior 2016 (Spanish)

In January 2000, a man is washed up on the coast of Galicia and is referred to a psychiatric hospital, as he appears to have lost his memory. Known as “the professor”, he is going to spend the rest of his life there although we are increasingly suspecting that he isn’t quite as mad as we thought, and maybe he hasn’t lost his memory either.

After his death, Ana, who was one of the psychiatrists at the hospital at the time of his referral, pieces together the mysteries of the professor’s previous life from a set of five stories that he had written and hidden in different places. Ana reports the progress of her quest in emails to a former colleague and love interest, but we don’t know whether he ever reads her emails – she never refers to anything he might have said in reply, so it’s a strong possibility that the ex, now living in New York and married to somebody else, deletes her messages unread.

The novel intersperses these emails with the professor’s writings and the psychiatrists’ case notes to create a jigsaw puzzle that remains mysterious to the last. We begin to suspect that the mad professor may have been a sane man in a mad world, as becomes clear from the questionnaire he designs to test the sanity of his doctors. He is thinking about the mysteries of time in a quest to stop the man-made destruction of the environment. (Hora Zulú (Zulu Time), by the way, which occurs at the end of each of his texts, is just a navy / aviation code for Greenwich Mean Time.)

Meanwhile, Ana has her own problem with time. She wants to wind back the clock to be back with her ex (or was he just an almost lover?). As the personality of the patient is gradually beginning to make more sense, that of the psychiatrist is becoming a shade crazier, although her voice, emailing into the void with the mixture of exciting discoveries and the mourning for lost love, (to me) really was the main attraction of the book. I’d happily read more of her emails any time.

The whole tackles some big questions, including:
* what is the nature of time, and can it be stopped or reversed? and:
* am I crazy or is the world around me going crazy? speaking of which:
* can dogs read our minds?
The answers, however, remain a mystery.



(cover of the Galician edition, although Amazon Spain seems to think it is in Spanish).




Wednesday, March 21, 2018

radium girls

My review of

The radium girls
Kate Moore
Simon & Schuster 2016
ISBN 978-14711-5387-7

is out in Chemistry & Industry, issue 2, page 43, with the very fitting headline:

Death watch

restricted access via SCI (premium content).

very scary stuff but also an inspiring story of women fighting for their rights and winning in the end, thereby saving hundreds of lives:

snippet:

Young women who had worked as dial painters during the war and then moved on to other things started dying of mysterious symptoms, but it took years before the dots were duly joined. In June 1925, the first male employee died and gained a dubious honour: His post-mortem marked the first time that radioactivity was detected in a human body.


Monday, March 19, 2018

forest family

In contrast to what some reforestation programmes and commercial forestry seem to think, forests aren't just collections of identical trees, they are complex ecosystems with characteristic diversity in plant species as well as in everything else. Big data now enables researchers to analyse that complexity in detail on a global scale and work out how forests successfully spread around the world in relatively short time (less than 1/10 of the age of the Earth) and how humanity is reversing that spread in an even shorter time.

Read all about it in my latest feature, which is out now:


The rise and fall of global forests


Current Biology Volume 28, Issue 6, 19 March 2018, Pages R245–R248


FREE access to full text and PDF download




As I used the ginkgo as an example of a tree that lost its ecological context, this was a good excuse to use one of my own photos - taken at the top end of John Garne Way, Oxford Brookes University.

Thursday, March 08, 2018

a cellist lost

I came across Alfonse Mucha’s lithograph of Zdeňka Černý, “The greatest Bohemian violoncellist”, on tumblr and wondered why I had never heard of her. Although the artwork is dated 1913, Google found no recordings of her or reviews of performances, so by the time I reblogged the image I was slightly worried about her and included a question about her further fate in my reblog.

Within 24 hours a helpful follower pointed me to a recent memoir published by Zdeňka Černý’s daughter, Jetta Marie Vasak (My Bohemian Heritage), which I ordered and which answered most of the questions I had. The simple answer to the main question: she married a banker (and non-musician) who wanted her to give up her musical career, and she obliged. The book uses Mucha's lithograph (without the text) as cover art:




The book is a charming collection of vignettes with a catastrophic lack of editing or structure of any kind, so I’ll try to extract from it what I learned about Zdeňka Černý’s life and put it into a short biography (may revise and add to it later):


Zdeňka Olga Černý was born in Chicago 26.8.1895 as the second of three children of Albert Vojtech (“AV”) Černý (* 1.5.1872 Jilove, immigrated to USA in 1888, + 14.6.1964) and Frances (Fanny) Engelthaler (* 5.4.1873 + 24.2.1918). Her father was a successful music teacher (piano, cello, violin, voice) and the founder of the first Bohemian Conservatory of Music in Chicago .

In 1905-6 the artist Alfonse Mucha stayed several months with the Černý family in Chicago and painted several pictures of the older daughter Milada (1892-1973), who was famous as a child prodigy on the piano. Zdeňka asked him to paint her as well, and he promised to do so once she became a virtuoso cellist. At that point, she had only recently started to take an interest in the cello and take lessons with her father.

In March 1913, Mucha visited the family again. By this time, Zdeňka had become an accomplished cellist and played a recital for Mucha with her father accompanying her on the piano. After the performance, she reminded the artist of his earlier promise, and he agreed to start immediately. A photo of Zdeňka with her cello was taken at a studio. Mucha mainly worked from this photo, which he divided in squares. He made a drawing which he then coloured in gouache.

As Zdeňka and her father were preparing for a European tour planned for the following year, Mucha took the drawing to Prague to have the lithographer Neubert print posters under his supervision. For these, Mucha also designed the lettering underneath: “Zdeňka Černý, The greatest Bohemian violoncellist”.

On 29.6. 1914, AV and Zdeňka Černý were on the train to New York to catch a ship to Europe when they read the news of the Sarajevo assassination the day before. They still travelled to London and onwards to Prague, although I’m not sure how many (if any) concerts they actually played and where.

By the time they reached Prague, AV was worried that he might be called up for military service in the Austro-Hungarian army and thus started to plan the return. In March 1915, AV played a recital in Prague, but soon afterwards they took the steamship St. Louis from London and by the summer they were back home in Chicago.

During the 1915 summer holiday Zdeňka spent with her father on the shores of Bear Lake near Haugen, Wisconsin, they met Otto Vasak (14.7.1882- 23.6.1961), then 33 and a bachelor, with whom she fell in love. After he returned to the city while the Czerny family still stayed in the summer cabin, they exchanged love letters via a helpful neighbour.

After a night staying out longer than allowed and fearing corporal punishment, Zdeňka eloped, which appeared to be the normal way for daughters to leave the house in that family. She broke off a previous, secret engagement to violinist Jiri Hruso and married Vasak at Chicago on 11.3.1916.

Jetta Vasak reports that Otto forbade her to pursue her musical career or indeed any teaching. A planned performance of the Saint-Saens cello concerto with the Chicago Symphony Orchestra under Frederick Stock is cancelled. There is no mention of any discussion or resistance (apart from AV who sulked for two years). There is a small hint of a controlling relationship, as the author mentions that Otto did the family shopping at one point to keep Zdeňka indoors, but no indication of any trouble whatsoever. The next time Zdeňka is mentioned touching her cello is after her second husband dies in 1977, when she is already 82 years old.

They had two sons in quick succession, Otto (* 22.5.1917) and Francis (* 25.2.1919)
and then Jetta (* 26.1.1927). Otto played clarinet, Francis trumpet and Jetta French horn, but Zdeňka appeared to be restricted to the role of appreciative audience.

In 1955, Zdeňka and Otto moved from Berwyn to La Grange Park, a suburb of Chicago. Otto died suddenly on 23.6.1961 aged 78. After Zdeňka reported her loss to an old family friend, Robert Dolejsi who lived in California, it emerged that he, too, had become a widower almost at the same time. The two found more common ground and married in 1963.

Zdeňka moved to California to live with Robert. There she came in contact with artists and academics interested in the Mucha lithograph of her, which thus was rescued from oblivion. After Robert’s death, the above-mentioned attempt to reconnect with her cello failed. She died in 1998, aged 102. Sadly, “the greatest Bohemian violoncellist” appears to have spent around 90 years of her life not playing the cello.

Update August 2020 - I only now discovered that there is an obituary of Zdeňka's son Otto online. He also published a memoir. And I was pleased to learn that he continued playing the clarinet throughout his long life until he died at the age of 97. I'm not sure whether it's worth buying his memoir as well, as it seems to be mostly about his time in WWII, but from the preview pages available at Amazon, I learned that his grandfather, AV Cerny, returned to Czechoslovakia between the wars, stayed five years and served as the principal cellist at a Prague orchestra. (That's also mentioned in Jetta's book but I may have overlooked it at the time.)

Monday, March 05, 2018

regeneration lessons

I hear a certain Dr Who does it all the time, but mere mortals like ourselves can't regenerate, not even as much as a finger. Research into why salamanders can regrow an amputated limb and we can't has received a boost from the genome sequences of three relevant species including the axolotl, which were obtained in spite of considerable difficulties.

Covering these advances in my latest feature, I stuck my neck out a bit and speculated on medical benefits, but I guess it will be a long time before we can learn from the axolotl.

Meanwhile, read the story here:

Regeneration lessons from the axolotl

Current Biology Volume 28, Issue 5, 05 March 2018, Pages R187–R189


FREE access to full text and PDF download





The genome of the axolotl, Ambystoma mexicanum, is the largest ever sequenced. Researchers hope that it will facilitate the investigation of the remarkable regeneration abilities observed in this species. (Photo: Stan Shebs (CC BY-SA 3.0).)