Andrew T. D. Bennett

Bio: Andrew T. D. Bennett is an academic researcher from Deakin University. The author has contributed to research in topics: Population & Zebra finch. The author has an hindex of 40, co-authored 98 publications receiving 7065 citations. Previous affiliations of Andrew T. D. Bennett include Université libre de Bruxelles & University of Bristol.

Visual pigments, oil droplets, ocular media and cone photoreceptor distribution in two species of passerine bird: The blue tit (Parus caeruleus L.) and the blackbird (Turdus merula L.)

Abstract: The spectral absorption characteristics of the retinal photoreceptors of the blue tit (Parus caeruleus) and blackbird (Turdus merula) were investigated using microspectrophotometry. The retinae of both species contained rods, double cones and four spectrally distinct types of single cone. Whilst the visual pigments and cone oil droplets in the other receptor types are very similar in both species, the wavelength of maximum sensitivity (λmax) of long-wavelength-sensitive single and double cone visual pigment occurs at a shorter wavelength (557 nm) in the blackbird than in the blue tit (563 nm). Oil droplets located in the long-wavelength-sensitivesingle cones of both species cut off wavelengths below 570–573 nm, theoretically shifting cone peak spectral sensitivity some 40 nm towards the long-wavelength end of the spectrum. This raises the possibility that the precise λmax of the long-wavelength-sensitive visual pigment is optimised for the visual function of the double cones. The distribution of cone photoreceptors across the retina, determined using conventional light and fluorescence microscopy, also varies between the two species and may reflect differences in their visual ecology.

Ultraviolet Vision in Birds

Abstract: Publisher Summary Birds can see ultraviolet (UV) light because, unlike humans, their lenses and other ocular media transmit UV, and they possess a class of photoreceptor, which is maximally sensitive to violet or UV light, depending on the species Birds have a tetrachromatic color space, as compared to the trichromacy of humans Birds, along with some reptiles and fish, also possess double cones in large numbers and a cone class This chapter discusses a range of behavioral experiments, from several species, which show that UV information is utilized in behavioral decisions, notably in foraging and signaling Removal of UV wavelengths affects mate choice even in species that are colorful to humans These studies emphasize that avian and human color perceptions are different and that the use of human color standards, and even artificial lighting, may produce misleading results However, genuinely objective measures of color are available, as are, importantly, models for mapping the measured spectra into an avian color space

Ultraviolet vision and mate choice in zebra finches

Abstract: SEXUAL selection is one of the most actively studied areas of evolutionary biology1–3, and ever since Darwin1 birds have been probably the most popular taxon for testing the predictions about colour variation. Humans have been used to assess 'colour', an approach which may be flawed4,5 as many birds see in the ultraviolet (to which humans are blind), and have at least four spectral classes of retinal cone cells (humans have only three). Here we report experiments on zebra finches which test the hypothesis that the ultraviolet waveband (300–400 nm) is used in avian mate-choice decisions. We found that the ultraviolet is used, and that it probably contributes to hue perception. This finding may have wide implications for future studies of avian sexual selection and colour, and supports one hypothesized function of avian ultraviolet vision, the role of which is largely unknown.4,6,7

Sexual Selection and the Mismeasure of Color

Abstract: Many long-standing evolutionary hypotheses make predictions about trends in color patterns. Examples of these include crypsis, mimicry and warning coloration, fruit coloration, flower coloration, the handicap principle of honest advertisement, Fisher's runaway process, the parasite theory of sexual selection, and sensory drive theories of signaling. The majority of tests of these hypotheses, particularly with regard to sexual selection, have been conducted on objects that birds perceive visually, with human vision used to assess color. This assumes that birds see color patterns as humans do, an assumption that is seriously flawed. First, birds see very well parts of the spectrum that humans cannot. Second, birds have at least four dimensions to their color vision, compared to only three in humans. Third, birds have a complex system of oil droplets in their retinas, which may alter the number of hues they perceive. Thus, an object will not appear to have the same hues for a human and a bird, and maybe not ...

Using Multivariate Statistics

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Fast Tree: Computing Large Minimum-Evolution Trees with Profiles instead of a Distance Matrix

Abstract: Gene families are growing rapidly, but standard methods for inferring phylogenies do not scale to alignments with over 10,000 sequences. We present FastTree, a method for constructing large phylogenies and for estimating their reliability. Instead of storing a distance matrix, FastTree stores sequence profiles of internal nodes in the tree. FastTree uses these profiles to implement neighbor-joining and uses heuristics to quickly identify candidate joins. FastTree then uses nearest-neighbor interchanges to reduce the length of the tree. For an alignment with N sequences, L sites, and a different characters, a distance matrix requires O(N^2) space and O(N^2 L) time, but FastTree requires just O( NLa + N sqrt(N) ) memory and O( N sqrt(N) log(N) L a ) time. To estimate the tree's reliability, FastTree uses local bootstrapping, which gives another 100-fold speedup over a distance matrix. For example, FastTree computed a tree and support values for 158,022 distinct 16S ribosomal RNAs in 17 hours and 2.4 gigabytes of memory. Just computing pairwise Jukes-Cantor distances and storing them, without inferring a tree or bootstrapping, would require 17 hours and 50 gigabytes of memory. In simulations, FastTree was slightly more accurate than neighbor joining, BIONJ, or FastME; on genuine alignments, FastTree's topologies had higher likelihoods. FastTree is available at http://microbesonline.org/fasttree.

The descent of man and selection in relation to sex

Abstract: ION, GENERAL CONCEPTIONS, SELF-CONSCIOUSNESS, MENTAL INDIVIDUALITY. It would be very difficult for any one with even much more knowledge than I possess, to determine how far animals exhibit any traces of these high mental powers. This difficulty arises from the impossibility of judging what passes through the mind of an animal; and again, the fact that writers differ to a great extent in the meaning which they attribute to the above terms, causes a further difficulty. If one may judge from various articles which have been published lately, the greatest stress seems to be laid on the supposed entire absence in animals of the power of abstraction, or of forming general concepts. But when a dog sees another dog at a distance, it is often clear that he perceives that it is a dog in the abstract; for when he gets nearer his whole manner suddenly changes, if the other dog be a friend. A recent writer remarks, that in all such cases it is a pure assumption to assert that the mental act is not essentially of the same nature in the animal as in man. If either refers what he perceives with his senses to a mental concept, then so do both. (44. Mr. Hookham, in a letter to Prof. Max Muller, in the 'Birmingham News,' May, 1873.) When I say to my terrier, in an eager voice (and I have made the trial many times), "Hi, hi, where is it?" she at once takes it as a sign that something is to be hunted, and generally first looks quickly all around, and then rushes into the nearest thicket, to scent for any game, but finding nothing, she looks up into any neighbouring tree for a squirrel. Now do not these actions clearly shew that she had in her mind a general idea or concept that some animal is to be discovered and hunted? It may be freely admitted that no animal is self-conscious, if by this term it is implied, that he reflects on such points, as whence he comes or whither he will go, or what is life and death, and so forth. But how can we feel sure that an old dog with an excellent memory and some power of imagination, as shewn by his dreams, never reflects on his past pleasures or pains in the chase? And this would be a form of self-consciousness. On the other hand, as Buchner (45. 'Conferences sur la Theorie Darwinienne,' French translat. 1869, p. 132.) has remarked, how little can the hardworked wife of a degraded Australian savage, who uses very few abstract words, and cannot count above four, exert her self-consciousness, or reflect on the nature of her own existence. It is generally admitted, that the higher animals possess memory, attention, association, and even some imagination and reason. If these powers, which differ much in different animals, are capable of improvement, there seems no great improbability in more complex faculties, such as the higher forms of abstraction, and selfconsciousness, etc., having been evolved through the development and combination of the simpler ones. It has been urged against the views here maintained that it is impossible to say at what point in the ascending scale animals become capable of abstraction, etc.; but who can say at what age this occurs in our young children? We see at least that such powers