Archive for the 'biology' Category

Echolocation

ultrasonis sensor
This is my ultrasonic sensor, during the first days of the radar residency i have been doing some experiments with this to find out how it works – essentially i am hoping to use it as a way of creating a human echo-locating device. essentially it seems that this measures the distance between an ultra-sound pulse and its echo. we connected this up to a oscilloscope to see how obstacles looked in terms of the sound reflection…

scope

Apparently, Shrews are the only terrestrial mammals known to echo-locate [and the Tenrecs of Madagascar]. The shrews emit series of ultrasonic squeaks.

“Human echolocation is the ability of humans to sense objects in their environment by hearing echoes from those objects. This ability is used by some blind people to navigate within their environment. They actively create sounds, such as by tapping their canes or by making clicking noises with their mouths. Human echolocation is similar in principle to active sonar and to the animal echolocation employed by some animals, including bats and dolphins….Some blind people have described the phenomenon not as a learned method of navigation, but as an inherent and intuitive extra sense. For example, a blind person could walk past a line of trees and feel a “pressure” at their side as they passed each tree. The cause of this would be the echo of the sound of their footsteps; however, they may not consciously be aware of this mechanism, only that the phenomenon exists and can often be relied upon to detect obstacles.”

experiment
Pauls experiment investigates how dolphins detect sound using the jaw bone – this box has metal rods inside in a line [aproximatly representing the allignment of teeth in a jawbone] – so as the sound wave travels through the channel, the rods act as a filtering device – or at least that is the hypothesis [very briefly]. Apparently dolphins use their jawbone as a way of honing in on the direction of certain sounds.

Experiment with electric fish

Here are some of the latest images from the Enki project…
room
The main view of the experiment chamber. The Enki installation at Cornerhouse is now up and running. There are experiments by appointment every 15mins, and all the data is being collected.
coms
It has taken me ages to make these comms units, they contain16 interconnecting cables within a noise reducing or shielded structure.

table
The Table has two monitors one from the fish room and one from the human room. You can speak to the person in the experiment via a mic.

inside room
Inside the sound proofed room for the human there is a chair and the sensor interface.

room side
There is a window into the fish room on the side of the chamber

fish
fish room
The room containing the fish is electrically shielded.

Vampyroteuthis “vampire squid from hell” – Planet Earth

spectropica “Dreamachine” /2008/


spectropia, originally uploaded by Antony Hall.

Greg enjoys the brain machines at Spectrpia conference in Latvia 2008 presentation from 10111.ORG (Gianluca Ruggeri and Filippo Filliger) “Dreamachine” /2008/. The artists recreated some of the original devices and gave a presentation of the history of the dream machine. They also made screen printed templates for creating your own.

http://www.rixc.lv/08/en/exhibition/artists.html

air ray

Been doing some reserch into creating my own ROV type aquatic robot – found these excellent projects by FESTO a german company

Also there is an Air Jelly…
“FESTO AirJelly http://www.festo.com/cms/de_de/5890.htm This new concept of a jelly fish that flies through the air has been presented by Festo at the 2008 Hannover Messe in Germany. Please read out blogpost http://airshipworld.blogspot.com/2008/04/let-jelly-fish-…”

On the abundance of nematodes

In an effort to find some further information on nematodes, I found that they are the most abundant of all life forms; N A Cobb a nematologist writes on the abundance of nematodes…

“If all the matter in the universe except the nematodes were swept away, our world would still be dimly recognizable, and if, as disembodied spirits, we could then investigate it, we should find its mountains, hills, vales, rivers, lakes and oceans represented by a thin film of nematodes. The location of towns would be decipherable, since for every massing of human beings there would be a corresponding massing of certain nematodes. Trees would still stand in ghostly rows representing our streets and highways. The location of the various plants and animals would still be decipherable, and, had we sufficient knowledge, in many cases even their species could be determined by an examination of their erstwhile nematode parasites.”
— N.A.Cobb

Forgotten nematode experiment

Rummaging through boxes in my studio i found a lunch box containing the nematode culture my sister gave me for Christmas. It was an unusual present – a tub of yellowish slime smelling of vinegar. These nematodes feed on yeast. The growth medium is porridge oats and a bit of yeast to get it going.

The microscopic worms form tree like patterns as they creep up the sides of the container; writhing masses of worms form super highways; (branches) either to escape the saturated lower regions of the culture or in seeking of new food – i dont know yet. these branchlets seem to persist for quite a while.

I mixed up 3 cultures to with varying amounts of oats and yeast and water unfortunately i lost my notes and forgot about this since Christmas. I was pleasantly surprised to see that they were still fermenting & wriggling away in this tub with excellent results…


The original Tub showed stubby branches which did not go very high in the container. (originally these branches spread all over the inner surfaces) worms were still invisible.

Tub A and C pictured below..
Nematodes form into evenly spaces spots, clusters of tiny worms, around the inner surface. The worms are less than 1mm long but fairly active – in tub C the worms are inactive and form faint irregular branchings
tub Atub C

Tub B
Had very active complex branchings, and the worms had grown to about 2mm!
There is an interesting dynamic with the movement.

In the film (which was made in a bit of a rush) you will notice that when the worm moves across free space & meets another worm they move against each other the seem temporarily magnetize to each other & sometimes to deflect trajectories. This has to be partly to do with capillary build up of liquids around the worms bodies. Perhaps it is easier to collectively amass to hold fluid together, perhaps making it easier to move and feed. I plan to do some time lapse of this…

Slime mold escapes

Simon Parks a microbiologist at University of Surrey, & represents & a “collective” of artists working with slime molds called the Physarum Dynamic. see http://www.unnecessaryresearch.org/

He sent me these amazing images of slime molds creeping over a book. apparently a laboratory accident of some kind – these molds try to escape the confines of the petri dishes given the chance. I would not like to fall asleep near one.

He as well as other members of the institute of unnecessary research have been keeping these as pets.
Simon also works with these ‘bio-fluids’ bacterium which appear to behave like fluids, rather than typical bacterial cultures which tend to propagate in circular growths. I am still not clear on the mechanism of this phenomena, But here is Simon’s take on it;

“This type of bacterium grows as a long chain of many thousands of individual rod-like cells. The chain is extended by the growth of individual bacteria within the chain and these generate a pushing motion. Single chains of bacteria, join together to form threads and the pulsing power is amplified. I think this is how the waves are generated with whole masses of bacterial threads uniting to become a wave that flows around objects and becomes turbulent”

In this image the growth filaments or strands seem to be encircling this opening in the medium; the circular hole that was cut in the agar gel – this looks as if it were liquid pouring through a hole. It would appear that the bacterium obeys the laws of fluid mechanics.

bio fluid

Tardigrades In Space (TARDIS)

A few years back I was trying to extract Tardigrades (Moss bear or Water piglet!)from old moss specimens at Manchester Museum – as it is reported that these animals can survive in a dehydrated state for over a hundred years. These are microscopic extremophiles that live in moss. I had no luck – but did find a multitude of other interesting microscopic artifacts. last night I found out that a satalite has been launched carrying a team of elite tardinauts into space to see if they are able to survive the solar radiation. “They also are resistant to levels of X-ray radiation that are hundreds of times more lethal to humans and other organisms. This resilience stems from the tardigrade’s ability to survive without water. ” If anything can survive the extreme conditions of open space – it will be Tardigrades- follow the link to this site to find out more…

Tardigrades In Space (TARDIS)

Tardigrades In Space or “TARDIS” is the first research project to evaluate the ability of tardigrades to survive under open space conditions. TARDIS is one of the projects within the Biopan-6 research platform provided by European Space Agency (ESA), and will be sent into space with the russian FOTON-M3 mission.

Brain waves

In preperation for the next ENKi event, me and Greg spent the day testing the neuro-graphic interface; as an experiment we patched a strong frequency via MIDI to a MAX patch so our brains were modulating all kinds of strange sounds. I dont yet fully understand MIDI – but Later this will combine with the enki interface as a form of feedback.  In this image you can see the  graphics of the brain activity and the  receiver boxes – the sensors are wireless and stuck to our foreheads.

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Chemical waves – bz reaction

Finally got around to experimenting with the reaction – trying to work out the best way to get a dramatic visual result – sandwiching the mix between glass and the base of a petri dish worked well – but the waste gas product creates bubbles which eventually obscure the reaction – so we tried to get an even covering over the glass by getting it perfectly flat.

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Nicks brother had an idea to try the reaction vertically – which worked amazingly well.

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The Carnivorous Syndrome in 3D

I was reading about this project in Make magazine – he grows different carnivorous plants from seed, and has filmed the growth process over a year in 3D time-lapse using a LEGO robot to make stereo-graphs using a standard digital camera.

You can buy the DVD from the site (you will need 3D glasses to see the 3D effect).http://www.3dsyndrome.com

Pond life

Here is the original drawing from a project to create a sustainable ecosystem inside a globule of water (1999-2004) – I am just modifying this to include the addition of a laser to detect micro acoustic sounds and sub-sonic architectural noise. the droplet of liquid acts as a natural sensitive body – that can modulate the laser, acting like a lens.

Pond life project - Antony Hall 2007

Non-living Dissipative Systems

Robo-fin

These projects investigate numerous applications of Neurophysiology, Sensor based motion guidance, experimental methods include measurement of the propulsion capabilities of robotic models of electric fish “We’ve developed a hypothesis regarding why active sensing animals such as electric fish, bats, and rats tend to have highly accurate spatial maps of their surround. We are testing this hypothesis using fish mazes.”

the robo-fin is a robot based on the sinusoidal fin movements of the knife fish.


“Our research group pursues both empirical and modeling efforts in mechanics and neurobiology, integrating the two together within simulation environments.”

http://www.neuromech.northwestern.edu/uropatagium/

neurostimulation and fish

The earliest recorded human effort at neuro-stimulation appears to have been that of the Mesopotamian healer Scribonius Largus 47AD (?) who used electrical currents to produce transient pain relief.

By either the direct application of electrical torpedo fish (eels, of the type shown below) to the human body or by placing painful extremities into a pool of water containing torpedo fish the resulting electrical shocks stunned the nervous system allowing an immediate and residual numbness in the extremity.

In this application electrical torpedo fish were the very first means of achieving transcutaneous electrical nerve stimulation (TENS) for therapeutic purposes. This form of treatment was particularly popular for the treatment of gouty arthritis.

Pliny (AD 61-113) commented on the fact that while the torpedo fish was not itself sluggish, it could induce sluggishness in other fish. He also detailed how to extract the medicinal magic of the torpedo fish into oils and ointments used for various ailments, or more popularly either to cool lust or to induce love.

In Plato’s (428-348 BC) dialoge Meno Socrates is told “you seem both in appearance and in your power over others to be like a torpedo fish, who torpifies those who come near him, as you have now torpified me, I think. For my soul and my tongue are really torpid and I do not know how to answer you.”

The affects of a shock from the electric Torpedo Fish, which lived in the Mediterranean, were well known. What caused of the affects was not. Aristotle (384-322 BC) said that the torpedo fish “narcotize” its prey.

BZ reaction

Last year my self and Nick Senior (Chemist and materials scientist) got together to recreate the BZ reaction – “The Belousov-Zhabotinsky reaction is a spatio-temporal chemical oscillator.” which sounds excellent in its self – but to see this reaction for real is quite un-nerving in a strange way. I have made a page about it which has all the information on this (see pages) This year we are going to try and interface it with sensors to see if we can use the rhythmical pulses to control musical chords. hopefully this will be on show in Prague later in the year…

In this photo from our experiment last year – two spiral formations have developed, they rotate in synchronization and in opposite directions! the image covers about 5cm section of liquid squashed between glass.

BZ reaction page

The Institute of Science in Society

Dr Mae-Wan Ho is director of ISIS and among some really interesting research has developed a way of imaging living organisms as ‘liquid-crystal’ and other holistic approaches to looking at the organismn & has done a lot of research into finding a scientific basis for acupuncture; this looks at the relationship of collegen in cells, and the phenomenon of ‘ordered water’.


Live first instar Drosophila larva observed with a noninvasive imaging technique that produces interference colours in its tissues depending on the birefringent, liquid crystalline order of the constituent molecules.(1)

“The Institute of Science in Society (ISIS) founded by Mae-Wan Ho and Peter Saunders to work for social responsibility and sustainable approaches in science. A major part of our work is to promote critical public understanding of science and to engage both scientists and the public in open debate and discussion. ISIS has been providing inputs into the GM debate that would have been conspicuously lacking otherwise.”
www.i-sis.org.uk
“Science is intrinsically honest, open and pluralistic, and disagreements must be openly and democratically debated.”

Shielded Tents

Shielded Tents are based on the Faraday cage principle and are used to cut out electromagnetic interference – (wif, phone signals etc)

I have been considering using one of these to put people in while they interface with the fish. People have been making foil lined clothes to block out RFID scanners – so I am thinking I will need to make my own cage using a foil lining. as these cages are well expensive.
http://www.hollandshielding.com/faraday/shieldedtents.php

What is neuroethology?

[ by Carl Hopkins] “Neuroethology is the biological approach to the study of the neural basis of behavior. Thus, the focus is on the role of the nervous system in behavior, but the perspective is that which is called ‘ethological’. The ethological approach emphasizes the causation, the development, the evolution, and the function of behavior and neuroethologists seek to understand this in terms of neural circuits. Neuroethology is the study of natural behavior, which, in the older scientific literature, was called “instinctive behavior” or “innate behavior”. Neuroethologists base their studies on behavioral studies that often are done in the field on the animal’s own turf.”

electrical tracking systems

I found this article on http://www.jyi.org/news/nb.php?id=905 JYI, Inc. is a exciting, student-led initiative to broaden the scope of the undergraduate scientific experience. The experiment sounds quite interesting. The evolution of the mono-fin is apparently to minimize distortion if the fishes body while swimming (tis is one theory anyway) – and this suggests that it can also compensate for the swaying movements of plants purely through sensory response?

“Electric” Fish Illuminate How Brain Directs Movement
“Two properties of the fish, called glass knifefish, made them ideal for motion studies. First, the nocturnal fish “see” in the dark by emitting weak electric signals and gathering feedback through special electroreceptors in their brain cells. Second, the fish are capable of moving back and forth in a small tube, a behavior crucial to the study design.

The researchers used robotics to move a small plastic tube back and forth with increasing frequency. The fish, which used the tube as a hiding place, performed an electrical tracking technique to stay hidden in the tube as it moved. But the fish could only process the speed of the moving tube below a frequency of one motion per second (1Hz), a quality scientists describe as “low-pass” since receptors in brain cells only detect frequencies lower than a certain limit.

electro-sensitivity in sharks

The hammer head shark has to be the best looking of the sharks – I have only seen them on the “Blue planet” series – I was intrigued at the massive shoals where they seem to perform this odd twitch where the body flexes almost like a spasm – i was wandering if this has anything to do with generating a pulse of electricity that other sharks can detect? as thses sharks are not electrically active – but can only detect the electrical signals of muscle activity – such as small creatures under the sand….

“The ampullae of Lorenzini give the shark electrosense. The ampullae consist of small clusters of electrically sensitive receptor cells positioned under the skin in the shark’s head. These cells are connected to pores on the skin’s surface via small jelly-filled tubes. Scientists still don’t yet understand everything about these ampullary organs, but they do know the sensors let sharks “see” the weak electrical fields generated by living organisms. The range of electrosense seems to be fairly limited — a few feet in front of the shark’s nose — but this is enough to seek out fish and other prey hiding on the ocean floor.”

http://science.howstuffworks.com/shark2.htm

Electro-location in fish

Nelson Lab is one of the best recourses for information on the electric fish – it has also the most advanced computer visualizations of EOD discharge during prey capture…

“Computer reconstruction of electrosensory images
By combining the physical principles of electrosensory image formation and our knowledge of the response properties of electrosensory afferent nerve fibers, we can use computer models to reconstruct electrosensory images observed by the fish during electrolocation. The figure below shows a computer reconstructed image sequence from our prey capture studies. “
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Fish Perform Spatial Pattern Recognition and Abstraction

I have been fascinated by this project – Part 2 of the ENKI project will be based around this particular experiment…

Christian Graff, Gwenaël Kaminski, Michael Gresty, and Théophile Ohlmann

“We presented the fishes with different spatial structures, each consisting of a similar tube of insulating material, with eight electrodes set into the inside surface of the tube and wired to a switchboard outside the tank. Depending on the way electrodes were externally interconnected, these assemblies created different “shapes” in space. The shapes were 3D patterns of distortion in the electrical flux issuing from the fish’s electric organ. They formed virtual objects or places that could not be distinguished by visual, mechanical, or chemical means but only existed through electricity, similar to the way in which virtual objects or places on a TV screen only exist through light. In order to perform our tasks, the fish had to actively explore the maze by “scanning” with its electrical field and sensing distortion patterns caused by sinks and sources of flux.”

http://www.sciencedirect.com Current Biology
Volume 14, Issue 9, 4 May 2004, Pages 818-823

God helmet – Michael Persinger

neurologist Michael Persinger created a helmet modified with electrical coils that can create electromagnetic fields in the wearer’s temporal lobes that induces “religious” experiences in the people who put it on. I think the low-fi experimental devises he has made are excellent – I have seen several different types and it seems that some people are making these to order – although they seem relatively easy to recreate.
http://www.geocities.com/satanicus_2/GodHelmet.html

“This is a device to investigate whether religious, spiritual, and mystical experiences had a natural rather than a supernatural source. He speculates that we are somehow programmed so that they can generate religious experiences via our brain’s internal processes. He had noted that there were many points of similarity between seizures experienced by some individuals who suffered from epilepsy, and the types of mental and spiritual experiences that St. Paul, Moses, and many religious mystics had reported. 3 Persinger wondered if visions, a sense of the immediate presence of God, and other mystical experiences could be artificially created in the laboratory by magnetically inducing changes in the temporal lobes of a person’s brain.”

electrical life – andrew crosse

This is one of my favorite tales of strange science – I have tried to recreate this experiment after finding these same ‘acari’ spontaneously generating from cups of moldy coffee I was observing for several months as part of an exhibition…

Crosse was from somerset and had a laboratory with a large copper antenna, apparently for attracting lightning.

(This following text and images taken from this excellent site http://www.rexresearch.com/1index.htm )

Andrew CROSSE: Abiogenesis of Acari

experiment

In 1837, Andrew Crosse reported to the London electrical Society concerning the accidental spontaneous generation of life in the form of Acurus genus insects while he was conducting experiments on the formation of artificial crystals by means of prolonged exposure to weak electric current. Throughout numerous strict experiments under a wide variety of conditions utterly inimical to life as we know it, the insects continued to manifest. The great Michael Faraday also reported to the Royal Institute that he had replicated the experiment. Soon afterwards, all notice of this phenomenon ceased to be reported, and the matter has not been resolved since then.

electrical acari

(and this text from http://bizarrelabs.com/acarix.htm )

This is Acarus electricus, a mite first noticed by Andrew Crosse in 1837. Crosse was an amateur scientist, and was conducting experiments on the growth of crystals by subjecting certain minerals to long term, low level electric currents. The mineral sample, an iron oxide, was imbibed with a toxic mixture of hydrochloric acid and a silicate of potash solution, and continuously electrified by means of a battery. Several weeks into the experiment, filaments began to appear on the stone, which apparently resembled insects. Eventually, Crosse noticed movement, and detected a great number of living mites on the sample. He repeated the experiment under closely monitored conditions using sterilized and sealed equipment. Again, the mites appeared. Word soon got out, and popular opinion was that living creatures had been synthesized from inorganic matter. Crosse was called everything from a blasphemer to a Frankenstein, despite the fact that he never made any claims that he had created life, or even discovered a new species. In fact, he never attempted to explain the phenomenon, other than hazarding a guess that they may have hatched from airborne eggs deposited before the device was sealed.

Laboratories – electric fish

These are some of the leading research labs working with electric fish Neurobiology & Behavior; Good sources for essential information and also some great publications. and have provided much of the background for my project

apteronote.com Aptéronote – Mariage aquatique de la physique et de la biologie – Les caractéristiques des poissons faiblement électriques – les gymnotiformes – On y discute leurs comportements, système electrosensoriel, capacité de communication électrique, electroreception et le fonctionnement du cerveau.

Hopkins Lab
, Department of Neurobiology & Behavior, Cornell University.
Research in this lab concerns the neural basis of animal communication, including studies of mechanisms of signal generation, signal localization, and signal recognition in the context of species recognition. Our focus is on communication in the electrosensory modality of fish

amazonian-fish.co.uk
Amazonian Fishes and their Habitat

Nelson Lab
Our research is focused on active sensory acquisition. We seek to understand neural mechanisms and computational principles that animals use t o actively acquire sensory information in complex, dynamic environments

Binary Jam – Liverpool

I did a performance for this event organised by Markus Soukup as part of the Sound Network (Binaural Orchestra (G Byatt, D. Stockton & Guests), Modulus (Antony Hall), Apple & Can (Moebius & Igor Hax), Plus Projection By John O’Shea (‘Photography Where The Shutter Is Not Open’)

The performance was based arround the concept of  amplitude modulation. The earliest experiment using the concept of AM transmission was made at Bell Laboratories – where they used a water jet to record the conversation and ambient sounds in a room and etch these to wax cylinder. C.V. Boys demonstrated the ability of a water jet to amplify the sound of a ticking clock and a tuning fork.

During the performance for binary Jam I placed Daphnia in a droplet placed on a sensor; the water drop created a lens. The sounds were created as the creatures passed through the laser and creating distortions with the movement of the body and antennas – as well as the effect of the creature bouncing on and off the wall of the droplet causing the lens to shake and oscillate – creating a drum like reverberation.

I also used a USB interface with 8 light sensors controlled by candles to generate harmonic frequencies and drones with MAX MSP.

Greg Byatt kindly took these images…

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Daphnia – contained in droplet on light sensors.

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Droplet with laser transmitting through it.

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ENKI demonstartion

ENKI interface
Test and demonstration of prototype

My self and Gregory Byatt ran this event last year – and are due to do it again this year – only a bit differently – the thing will hopefully sue more visualization and actively use the neuro-feedback (through interfacing it with MAX MSP)

enki demonstration 2006

Documentation of first event;
Museum of Science and Industry Manchester, 7th October 2006

A multi media participatory experiment using live Electric Fish, real time neurographic interface visualising brain-wave activity, sound and live video. ENKI is an immersive sensory experience that explores the relationship between art and health, or more specifically, creates a therapeutic exchange between Humans and Electric Fish. It is part the HFID project dedicated to research in cross species (human and fish) communication and commune.

See the film here…
The participants become part of experimental research, as we record brain wave data and monitor the behaviour of the electric fish during the experiment. The electrical activity of the fish is experienced as sound and light via ENKI (a stroboscopic high frequency led placed close to eye lid) and the natural binaural frequencies produce by the interaction and communication between Black Ghost Knife fish. Participants bio-electric field is connected to the aquarium allowing the fish to sense a human (bio)electric image or presence.

hexapod cockroach robot control

It is a hexapod with kinematics based… It is a hexapod with kinematics based on studies of the cockroach Blaberus discoidalis performed in the Ritzmann Lab in the Biology Department at CWRU.

By Garnet Hertz (2005) “Cockroach Controlled Mobile Robot” is an experimental mechanism that uses a living Madagascan hissing cockroach atop a modified trackball to control a three-wheeled robot. If the cockroach moves left, the robot moves left. Infrared sensors also provide navigation feedback to the cockroach, striving to create a pseudo-intelligent system with the cockroach as the CPU


a