Multiple nuclear genes and retroposons support vicariance and dispersal of the palaeognaths,and an Early Cretaceous origin of modern birds

The origin and timing of the diversification of modern birds remains controversial, primarily because phylogenetic relationships are incompletely resolved and uncertainty persists in molecular estimates of lineage ages. Here, we present a species tree for the major palaeognath lineages using 27 nuclear genes and 27 archaic retroposon insertions. We show that rheas are sister to the kiwis, emu and cassowaries, and confirm ratite paraphyly because tinamous are sister to moas. Divergence dating using 10 genes with broader taxon sampling, including emu, cassowary, ostrich, five kiwis, two rheas, three tinamous, three extinct moas and 15 neognath lineages, suggests that three vicariant events and possibly two dispersals are required to explain their historical biogeography. The age of crown group birds was estimated at 131 Ma (95% highest posterior density 122–138 Ma), similar to previous molecular estimates. Problems associated with gene tree discordance and incomplete lineage sorting in birds will require much larger gene sets to increase species tree accuracy and improve error in divergence times. The relatively rapid branching within neoaves pre-dates the extinction of dinosaurs, suggesting that the genesis of the radiation within this diverse clade of birds was not in response to the Cretaceous–Paleogene extinction event.     

Analysis of N-glycosylation in maize cytokinin oxidase/dehydrogenase 1 using a manual microgradient chromatographic separation coupled offline to MALDI-TOF/TOF mass spectrometry

Cytokinin oxidase/dehydrogenase (CKO; EC 1.5.99.12) irreversibly degrades the plant hormones cytokinins. A recombinant maize isoenzyme 1 (ZmCKO1) produced in the yeast Yarrowia lipolytica was subjected to enzymatic deglycosylation by endoglycosidase H. Spectrophotometric assays showed that both activity and thermostability of the enzyme decreased after the treatment at non-denaturing conditions indicating the biological importance of ZmCKO1 glycosylation. The released N-glycans were purified with graphitized carbon sorbent and analyzed by MALDI-TOF MS. The structure of the measured high-mannose type N-glycans was confirmed by tandem mass spectrometry (MS/MS) on a Q-TOF instrument with electrospray ionization. Further experiments were focused on direct analysis of sugar binding. Peptides and glycopeptides purified from tryptic digests of recombinant ZmCKO1 were separated by reversed-phase chromatography using a manual microgradient device; the latter were then subjected to offline-coupled analysis on a MALDI-TOF/TOF instrument. Glycopeptide sequencing by MALDI-TOF/TOF MS/MS demonstrated N-glycosylation at Asn52, 63, 134, 294, 323 and 338. The bound glycans contained 3-14 mannose residues. Interestingly, Asn134 was found only partially glycosylated. Asn338 was the sole site to carry large glycan chains exceeding 25 mannose residues. This observation demonstrates that contrary to a previous belief, the heterologous expression in Y. lipolytica may lead to locally hyperglycosylated proteins.     

The learning advantage: bird species that learn their song show a tighter adjustment of song to noisy environments than those that do not learn

Song learning has evolved within several avian groups. Although its evolutionary advantage is not clear, it has been proposed that song learning may be advantageous in allowing birds to adapt their songs to the local acoustic environment. To test this hypothesis, we analysed patterns of song adjustment to noisy environments and explored their possible link to song learning. Bird vocalizations can be masked by low‐frequency noise, and birds respond to this by singing higher‐pitched songs. Most reports of this strategy involve oscines, a group of birds with learning‐based song variability, and it is doubtful whether species that lack song learning (e.g. suboscines) can adjust their songs to noisy environments. We address this question by comparing the degree of song adjustment to noise in a large sample of oscines (17 populations, 14 species) and suboscines (11 populations, 7 species), recorded in Brazil (Manaus, Brasilia and Curitiba) and Mexico City. We found a significantly stronger association between minimum song frequency and noise levels (effect size) in oscines than in suboscines, suggesting a tighter match in oscines between song transmission capacity and ambient acoustics. Suboscines may be more vulnerable to acoustic pollution than oscines and thus less capable of colonizing cities or acoustically novel habitats. Additionally, we found that species whose song frequency was more divergent between populations showed tighter noise–song frequency associations. Our results suggest that song learning and/or song plasticity allows adaptation to new habitats and that this selective advantage may be linked to the evolution of song learning and plasticity.     

Bird community composition across an Andean tree‐line ecotone

Few studies have found strong evidence to suggest that ecotones promote species richness and diversity. In this study we examine the responses of a high‐Andean bird community to changes in vegetation and topographical characteristics across an Andean tree‐line ecotone and adjacent cloud forest and puna grassland vegetation in southern Peru. Over a 6‐month period, birds and vegetation were surveyed using a 100 m fixed‐width Distance Sampling point count method. Vegetation analyses revealed that the tree‐line ecotone represented a distinctive high‐Andean vegetation community that was easily differentiated from the adjacent cloud forest and puna grassland based on changes in tree‐size characteristics and vegetation cover. Bird community composition was strongly seasonal and influenced by a pool of bird species from a wider elevational gradient. There were also clear differences in bird community measures between tree‐line vegetation, cloud forest and puna grassland with species turnover (β‐diversity) most pronounced at the tree‐line. Canonical Correspondence Analysis revealed that the majority of the 81 bird species were associated with tree‐line vegetation. Categorizing patterns of relative abundance of the 42 most common species revealed that the tree‐line ecotone was composed primarily of cloud forest specialists and habitat generalists, with very few species from the puna grassland. Only two species, Thlypopsis ruficeps and Anairetes parulus, both widespread Andean species more typical of montane woodland vegetation edges, were categorized as ecotone specialists. However, our findings were influenced by significant differences in species detectability between all three vegetation communities. Our study highlights the importance of examining ecotones at an appropriate spatial and temporal scale. Selecting a suitable distance between sampling points based on the detection probabilities of the target bird species is essential to obtain an unbiased picture of how ecotones influence avian richness and diversity.     

Modelling relationships between species spatial abundance patterns and climate

Aim To move towards modelling spatial abundance patterns and to evaluate the relative impacts of climatic change upon species abundances as opposed to range extents. Location Southern Africa, including Lesotho, Namibia, South Africa, Swaziland and Zimbabwe. Methods Quantitative response surface models were fitted for 78 bird species, mostly endemic (68) or near‐endemic to the region, to model relationships between species reporting rates (i.e. the proportion of checklists reporting a species for a particular grid cell), as recorded by the Southern African Bird Atlas Project, and four bioclimatic variables derived from climatic data for the period 1961–90. With caution, reporting rates can be used as a proxy for abundance. Models were used to project potential impacts of a series of projected climatic change scenarios upon species abundance patterns and range extents. Results Most models obtained were robust with good predictive power. Projections of potential future abundance patterns indicate that the magnitude of impacts upon a proxy for abundance are greater than those upon range extent for the majority of species (82% by 2071–2100). For most species (74%) both abundance and range extent are projected to decrease by 2100. Impacts are especially severe if species are unable to realize projected range changes; when only the area of a species' simulated present range is considered, overall abundance decreases of more than 80% are projected for 19 (24%) of species examined. Main conclusions Our results indicate that projected climatic changes are likely to elicit greater relative changes in species abundances than range extents. For most species examined changes were decreases, suggesting the impacts upon biodiversity are likely generally to be negative. These results also suggest that previous estimates of the proportion of species at increased risk of extinction as a result of climatic change may, in some cases, be under‐estimates.     

广东莲花山白盆珠省级自然保护区鸟类资源调查

于2008年1月～2010年12月对广东莲花山白盆珠省级自然保护区鸟类进行了调查,共记录到鸟类151种,隶属于45科16目。其中非雀形目鸟类74种(占49.01%),雀形目77种(50.99%);94种属东洋界种类(62.25%),42种属古北界种类(27.81%),15种属广布种(9.93%);留鸟88种(58.28%)、冬候鸟44种(29.14%)、夏候鸟15种(9.93%)、旅鸟和迷鸟4种(2.65%);国家Ⅱ级重点保护鸟类22种(14.57%)。该保护区鸟类特色是中华秋沙鸭种群数量较大,猛禽资源和水鸟资源较丰富。     

新型小片段基因表达载体构建方法

介绍一种新型快速构建小片段基因表达载体的方法。该方法省去了目的基因酶切和酶切后纯化步骤,并省去了载体酶切后胶回收纯化步骤,具有简单快速,节省试剂费用,连接效率高等特点。应用该方法已经完成了4个小片段基因(67bp)表达载体的构建。     

More and more generalists: two decades of changes in the European avifauna

Biotic homogenization (BH) is a process whereby some species (losers) are systematically replaced by others (winners). While this process has been related to the effects of anthropogenic activities, whether and how BH is occurring across regions and the role of native species as a driver of BH has hardly been investigated. Here, we examine the trend in the community specialization index (CSI) for 234 native species of breeding birds at 10 111 sites in six European countries from 1990 to 2008. Unlike many BH studies, CSI uses abundance information to estimate the balance between generalist and specialist species in local assemblages. We show that bird communities are more and more composed of native generalist species across regions, revealing a strong, ongoing BH process. Our result suggests a rapid and non-random change in community composition at a continental scale is occurring, most likely driven by anthropogenic activities.     

A New Noninvasive Method for Detecting Mammals From Birds' Nests

Abstract: Certain birds use mammal hair for the lining or structural strengthening of their nest. As a result, many bird nests can be regarded as natural hair snares. Preliminary studies indicate that analyses of hairs found in birds' nests are an effective method for detecting and identifying mammals that live in or migrate through an area and could be a useful tool to gain information about rare or hard to detect mammals. I documented 27 mammal taxa that were identified from hair collected from >3,000 nests. This study summarizes the results of 4 projects that represent application of this technique. This noninvasive method appears to be a useful tool for easily accessing basic faunistical data about mammal fauna of the given area.