The Songbird as a Percussionist: Syntactic Rules for Non-Vocal Sound and Song Production in Java Sparrows

Music and dance are two remarkable human characteristics that are closely related. Communication through integrated vocal and motional signals is also common in the courtship displays of birds. The contribution of songbird studies to our understanding of vocal learning has already shed some light on the cognitive underpinnings of musical ability. Moreover, recent pioneering research has begun to show how animals can synchronize their behaviors with external stimuli, like metronome beats. However, few studies have applied such perspectives to unraveling how animals can integrate multimodal communicative signals that have natural functions. Additionally, studies have rarely asked how well these behaviors are learned. With this in mind, here we cast a spotlight on an unusual animal behavior: non-vocal sound production associated with singing in the Java sparrow (Lonchura oryzivora), a songbird. We show that male Java sparrows coordinate their bill-click sounds with the syntax of their song-note sequences, similar to percussionists. Analysis showed that they produced clicks frequently toward the beginning of songs and before/after specific song notes. We also show that bill-clicking patterns are similar between social fathers and their sons, suggesting that these behaviors might be learned from models or linked to learning-based vocalizations. Individuals untutored by conspecifics also exhibited stereotypical bill-clicking patterns in relation to song-note sequence, indicating that while the production of bill clicking itself is intrinsic, its syncopation appears to develop with songs. This paints an intriguing picture in which non-vocal sounds are integrated with vocal courtship signals in a songbird, a model that we expect will contribute to the further understanding of multimodal communication.     

Perception and Conception: Shaping Human Minds

Perceptual experiences provide an important source of information about the world. It is clear that having the capacity of undergoing such experiences yields an evolutionary advantage. But why should humans have developed not only the ability of simply seeing, but also of seeing that something is thus and so? In this paper, I explore the significance of distinguishing perception from conception for the development of the kind of minds that creatures such as humans typically have. As will become clear, it is crucial to pay careful attention to the different kinds of information that are involved in perceiving and conceiving (including the way such information is gathered and transmitted). By identifying such kinds of information and the role they play, we can then understand an important feature of why creatures like us have the kind of consciousness and mental processes we do.     

Exceptional Evolutionary Divergence of Human Muscle and Brain Metabolomes Parallels Human Cognitive and Physical Uniqueness

Metabolite concentrations reflect the physiological states of tissues and cells. However, the role of metabolic changes in species evolution is currently unknown. Here, we present a study of metabolome evolution conducted in three brain regions and two non-neural tissues from humans, chimpanzees, macaque monkeys, and mice based on over 10,000 hydrophilic compounds. While chimpanzee, macaque, and mouse metabolomes diverge following the genetic distances among species, we detect remarkable acceleration of metabolome evolution in human prefrontal cortex and skeletal muscle affecting neural and energy metabolism pathways. These metabolic changes could not be attributed to environmental conditions and were confirmed against the expression of their corresponding enzymes. We further conducted muscle strength tests in humans, chimpanzees, and macaques. The results suggest that, while humans are characterized by superior cognition, their muscular performance might be markedly inferior to that of chimpanzees and macaque monkeys.     

Noise-invariant Neurons in the Avian Auditory Cortex: Hearing the Song in Noise

Given the extraordinary ability of humans and animals to recognize communication signals over a background of noise, describing noise invariant neural responses is critical not only to pinpoint the brain regions that are mediating our robust perceptions but also to understand the neural computations that are performing these tasks and the underlying circuitry. Although invariant neural responses, such as rotation-invariant face cells, are well described in the visual system, high-level auditory neurons that can represent the same behaviorally relevant signal in a range of listening conditions have yet to be discovered. Here we found neurons in a secondary area of the avian auditory cortex that exhibit noise-invariant responses in the sense that they responded with similar spike patterns to song stimuli presented in silence and over a background of naturalistic noise. By characterizing the neurons'' tuning in terms of their responses to modulations in the temporal and spectral envelope of the sound, we then show that noise invariance is partly achieved by selectively responding to long sounds with sharp spectral structure. Finally, to demonstrate that such computations could explain noise invariance, we designed a biologically inspired noise-filtering algorithm that can be used to separate song or speech from noise. This novel noise-filtering method performs as well as other state-of-the-art de-noising algorithms and could be used in clinical or consumer oriented applications. Our biologically inspired model also shows how high-level noise-invariant responses could be created from neural responses typically found in primary auditory cortex.     

生物磁学在鸟类定向研究中的进展

地球上广泛存在的地磁场能够为导航提供可靠的信息,因此很多鸟类在迁徙和归巢过程中都使用地磁信息来保证航行方向的正确,在迁徙的鸟类中已经发现有18种是利用地磁罗盘进行定向和导航的。本文从鸟类使用的磁罗盘、航行地图以及磁感应机制等几方面阐述了目前在鸟类生物磁学方面的研究进展。     

From Birdsong to Human Speech Recognition: Bayesian Inference on a Hierarchy of Nonlinear Dynamical Systems

Our knowledge about the computational mechanisms underlying human learning and recognition of sound sequences, especially speech, is still very limited. One difficulty in deciphering the exact means by which humans recognize speech is that there are scarce experimental findings at a neuronal, microscopic level. Here, we show that our neuronal-computational understanding of speech learning and recognition may be vastly improved by looking at an animal model, i.e., the songbird, which faces the same challenge as humans: to learn and decode complex auditory input, in an online fashion. Motivated by striking similarities between the human and songbird neural recognition systems at the macroscopic level, we assumed that the human brain uses the same computational principles at a microscopic level and translated a birdsong model into a novel human sound learning and recognition model with an emphasis on speech. We show that the resulting Bayesian model with a hierarchy of nonlinear dynamical systems can learn speech samples such as words rapidly and recognize them robustly, even in adverse conditions. In addition, we show that recognition can be performed even when words are spoken by different speakers and with different accents—an everyday situation in which current state-of-the-art speech recognition models often fail. The model can also be used to qualitatively explain behavioral data on human speech learning and derive predictions for future experiments.     

Animal and Human Health Implications of Avian Influenza Infections

Avian influenza (AI) is a listed disease of the World Organisation for Animal Health (OIE) that has become a disease of great importance both for animal and human health. Until recent times, AI was considered a disease of birds with zoonotic implications of limited significance. The emergence and spread of the Asian lineage highly pathogenic AI (HPAI) H5N1 virus has dramatically changed this perspective; not only has it been responsible of the death or culling of millions of birds, but this virus has also been able to infect a variety of non-avian hosts including human beings. The implications of such a panzootic reflect themselves in animal health issues, notably in the reduction of a protein source for developing countries and in the management of the pandemic potential. Retrospective studies have shown that avian progenitors play an important role in the generation of pandemic viruses for humans, and therefore these infections in the avian reservoir should be subjected to control measures aiming at eradication of the Asian H5N1 virus from all sectors rather than just eliminating or reducing the impact of the disease in poultry. Dennis J. Alexander—Unaffiliated Consultant Virologist     

Shaping of Human Germline IgH Repertoires Revealed by Deep Sequencing

To understand better how selection processes balance the benefits of Ig repertoire diversity with the risks of autoreactivity and nonfunctionality of highly variable IgH CDR3s, we collected millions of rearranged germline IgH CDR3 sequences by deep sequencing of DNA from mature human naive B cells purified from four individuals and analyzed the data with computational methods. Long HCDR3 regions, often components of HIV-neutralizing Abs, appear to derive not only from incorporation of long D genes and insertion of large N regions but also by usage of multiple D gene segments in tandem. However, comparison of productive and out-of-frame IgH rearrangements revealed a selection bias against long HCDR3 loops, suggesting these may be disproportionately either poorly functional or autoreactive. Our data suggest that developmental selection removes HCDR3 loops containing patches of hydrophobicity, which are commonly found in some auto-antibodies, and at least 69% of the initial productive IgH rearrangements are removed from the repertoire during B cell development. Additionally, we have demonstrated the potential utility of this new technology for vaccine development with the identification in all four individuals of related candidate germline IgH precursors of the HIV-neutralizing Ab 4E10.     

C-Terminal Amino Acids 471-507 of Avian Hepatitis E Virus Capsid Protein Are Crucial for Binding to Avian and Human Cells

The infection of chickens with avian Hepatitis E virus (avian HEV) can be asymptomatic or induces clinical signs characterized by increased mortality and decreased egg production in adult birds. Due to the lack of an efficient cell culture system for avian HEV, the interaction between virus and host cells is still barely understood. In this study, four truncated avian HEV capsid proteins (ORF2-1 – ORF2-4) with an identical 338aa deletion at the N-terminus and gradual deletions from 0, 42, 99 and 136aa at the C-terminus, respectively, were expressed and used to map the possible binding site within avian HEV capsid protein. Results from the binding assay showed that three truncated capsid proteins attached to avian LMH cells, but did not penetrate into cells. However, the shortest construct, ORF2-4, lost the capability of binding to cells suggesting that the presence of amino acids 471 to 507 of the capsid protein is crucial for the attachment. The construct ORF2-3 (aa339-507) was used to study the potential binding of avian HEV capsid protein to human and other avian species. It could be demonstrated that ORF2-3 was capable of binding to QT-35 cells from Japanese quail and human HepG2 cells but failed to bind to P815 cells. Additionally, chicken serum raised against ORF2-3 successfully blocked the binding to LMH cells. Treatment with heparin sodium salt or sodium chlorate significantly reduced binding of ORF2-3 to LMH cells. However, heparinase II treatment of LMH cells had no effect on binding of the ORF2-3 construct, suggesting a possible distinct attachment mechanism of avian as compared to human HEV. For the first time, interactions between avian HEV capsid protein and host cells were investigated demonstrating that aa471 to 507 of the capsid protein are needed to facilitate interaction with different kind of cells from different species.     

Hira基因与发育：从酵母到人类

Hir/Hira基因产物HIR/HIRA为组蛋白的伴侣蛋白,最先作为组蛋白基因表达的一种负调节因子从酵母中被鉴定出来。现已证实,HIRA包含一组保守的蛋白家族,广泛存在于低等真核生物、无脊椎动物和脊椎动物等多种生物体当中,为生命发育所必需。Hir/Hira基因功能突变对酵母以及高等真核生物的发育都有非常严重的影响。结合研究组的工作,综述了组蛋白调节基因Hir/Hira在不同生物体发育过程中的作用,以及该领域的研究方向之一 ¾ HIRA作用机理的最新进展。     

A Posteriori: Getting to the Bottom of Human Development

This article asserts that the most important physical feature distinguishing man from all other creatures, one which allowed for and contributed to the development of the thumb and the brain, which facilitated and encouraged the development of his imagination, his ability to think abstractly and even to doubt, and made it possible for him to master all other life forms and advance so far in containing and even conquering some forces of nature is his well-developed posterior; superior to that of all other living creatures: while sitting comfortably for long periods freed his hands and vision, it also allowed him to imagine and ponder what was over the horizon.     

Comparison of Species-Specific Bird Signals and Human Speech

We carried out a comparative study of spectral-prosodic characteristics of bird vocalization and human speech. Comparison was made between the relative characteristics of the fundamental frequency and spectral maxima. Criteria were formulated for the comparison of bird's signals and human speech. A certain correspondence was found between the vocal structures of birds and humans. It was proposed that in the course of evolution, man adopted the main structural principles of his acoustic signalling from birds.     

禽流感病毒感染人类及其致病机制研究

禽流感病毒感染禽类可引发呼吸系统到全身不同程度的病变,严重的可导致败血症、休克、多脏器功能衰竭,甚至死亡。上世纪末,禽流感病毒开始跨种向人类传播,其感染引起急性肺损伤、多器官衰竭等,具有较高的致病率和致死率,危害极大,引起了研究者的广泛关注。目前禽流感病毒感染人类及其致病机制尚不明确,本文就此做一综述,为其防治提供参考。     

人呼吸道禽流感病毒受体的分布趋势

禽类流感病毒和人类流感病毒具有很强的受体识别特异性,分别与唾液酸α-2,3Gal和α-2,6Gal受体分子结合而感染各自的宿主细胞．这种受体结合特异性是流感病毒在禽类和人类之间跨种属传递的主要障碍．应用凝集素组织化学染色技术,探讨人呼吸道各解剖学部位流感病毒唾液酸受体的分布特征．结果显示,唾液酸α-2,3Gal受体, 即禽类流感受体,主要分布在下呼吸道的呼吸部即呼吸细支气管和肺泡, 而在主气管、支气管和细支气管仅少量分布．相反,人类流感病毒受体,唾液酸α-2,6Gal受体在气管、支气管呈高密度分布,随着支气管分级逐渐降低分布减少,至肺泡分布最少．但比较人呼吸道发育成熟过程中,唾液酸α-2,3Gal和α-2,6Gal受体的表达,未发现明显差别．禽流感H5N1病毒体外感染人呼吸道组织试验结果表明,肺泡上皮较支气管和气管上皮易感染,与唾液酸α-2,3Gal受体分布特点相符合．结果提示,人呼吸道可被禽流感病毒感染,目前H5N1病毒极少发生人传人的特点,可能与个体间上呼吸道唾液酸α-2,3Gal受体表达差异有关．     

Avian navigation: from historical to modern concepts

Studies on avian navigation began at the end of the 19th century with testing various hypotheses, followed by large-scale displacement experiments to assess the capacity of the birds' navigational abilities. In the 1950s, the first theoretical concepts were published. Kramer proposed his ‘Map-and-Compass’ model, assuming that birds establish the direction to a distant goal with the help of an external reference, a compass. The model describes homing as a two-step process, with the first step determining the direction to the goal as a compass course and the second step locating this course with the help of a compass. This model was widely accepted when numerous experiments with clock-shifted pigeons demonstrated the use of the sun compass, and thus a general involvement of compass orientation, in homing. The ‘map’ step is assumed to use local site-specific information, which led to the idea of a ‘grid map’ based on environmental gradients. Kramer's model still forms the basis of our present concept on avian homing, yet route integration with the help of an external reference provides an alternative strategy to determine the home course, and the magnetic compass is a second compass mechanism available to birds. These mechanisms are interrelated by ontogenetic learning processes. A two-step process, with the first step providing the compass course and the second step locating this course with the help of a compass, appears to be a common feature of avian navigation tasks, yet the origin of the compass courses differs between tasks according to their nature, with courses acquired by experience for flights within the home range, courses based on navigational processes for returning home, and courses derived from genetically coded information in first-time migrants. Compass orientation thus forms the backbone of the avian navigational system. Copyright 2003 The Association for the Study of Animal Behaviour. Published by Elsevier Science Ltd. All rights reserved.