scholarly journals Composition of Bird Nests is a Species-Specific Characteristic

2018 ◽  
Vol 11 (2) ◽  
pp. 132-153 ◽  
Author(s):  
Lucia E. Biddle ◽  
Robyn E. Broughton ◽  
Adrian M. Goodman ◽  
D. Charles Deeming
Keyword(s):  
Geographic Location ◽  
Principal Component ◽  
Interspecific Variation ◽  
Nest Size ◽  
Individual Species ◽  
Adult Bird ◽  
Composition Structure ◽  
Species Specific ◽  
And Function ◽  
Insight Into

Bird nests represent an extended phenotype of individuals expressed during reproduction and so exhibit variability in composition, structure and function. Descriptions of nests based on qualitative observations suggest that there is interspecific variation in size and composition but there are very few species in which this has been confirmed. For these species, data of the amounts of different materials indicate that nest construction behaviour is plastic and affected by a variety of factors, such as prevailing temperature, geographic location, and availability of materials. The lack of data on nest composition is hampering our understanding of how nests achieve their various functions and how different species solve the problem of building a nest that will accommodate incubation and allow successful hatching of eggs. This study deconstructed nests of four species of the Turdidae, four species of the Muscicapidae, and six species of the Fringillidae and quantified the size of the nests and their composition. These data were used to test: (1) whether nest size correlated with adult bird mass; (2) whether it was possible to distinguish between species on the basis of their nest composition; and (3) whether, within a species, it was possible to distinguish between the cup lining and the rest of the nest based on composition. Most but not all nest dimensions correlated with bird mass. Principal component analysis revealed species differences based on nest composition and discriminant analysis could distinguish cup lining from the outer nest based on material composition. Intraspecific variation in composition varied among species and in general fewer types of material were found in the cup lining than the outer nest. These data provide insight into how nests are constructed by the different species and in conjunction with studies of the mechanical, thermal and hydrological properties of a nest, will begin to reveal how and why individual species select particular combinations of materials to build a nest.

scholarly journals Sensitivity in the antioxidant system of discus fish (Symphysodon spp.) to cold temperature: evidence for species-specific cold resistance

2019 ◽  
Author(s):  
Shi-Rong Jin ◽  
Bin Wen ◽  
Zai-Zhong Chen ◽  
Jian-Zhong Gao ◽  
Lei Wang ◽  
...  
Keyword(s):  
Cold Hardiness ◽  
Cold Resistance ◽  
Cold Treatment ◽  
Principal Component ◽  
Interspecific Variation ◽  
Continuous Sequence ◽  
Model Animal ◽  
Set Up ◽  
Species Specific ◽  
Subordinate Function

ABSTRACTThe discus fish (Symphysodon spp.) is an endemic species of the Amazon that is among the most popular ornamental fish around the world, and is usually used as the model animal for studying the diversification of Amazon fish. Here, a comparative analysis of two species of discus fish, i.e., S. haraldi and S. aequifasciatus, based on several antioxidant indexes was conducted, to test the hypothesis that cold resistance might correlate with the diversification of discus fish. We set up a continuous sequence of three temperature programs, namely cooling (28 °C to 14 °C; -1 °C/h), cold maintenance (14 °C for 12 h) and recovery (14 °C to 28 °C; +1 °C/h). Subordinate function (SF) combined with principal component analysis (PCA) showed that the cold hardiness of S. haraldi during cold treatment was in the order of cooling > cold maintenance ≈ recovery, but the cold hardiness of S. aequifasciatus during cold treatment was in the order of cold maintenance > cooling > recovery. Specifically, the lowest cold hardiness was observed in S. aequifasciatus during recovery, indicating that cold stress resulted in more seriously oxidative stress in S. aequifasciatus than in S. haraldi. Overall, these results show a significant interspecific variation, indicating the correlation between environmental adaptation and the diversification of discus fish.

scholarly journals Genetic and Morphological Analysis of the Origin and Identity of Perennial Lavatera (Malvaceae) Cultivars

2001 ◽  
Vol 126 (5) ◽  
pp. 593-598
Author(s):  
Mike L. Grant ◽  
Diana M. Miller ◽  
Alastair Culham
Keyword(s):  
Rapd Markers ◽  
Morphological Analysis ◽  
Rapd Analysis ◽  
Principal Component ◽  
Resolving Power ◽  
Hybrid Origin ◽  
Individual Species ◽  
Rapd Fingerprint ◽  
Cultural Requirements ◽  
Species Specific

Knowledge of the origin of Lavatera L. (tree mallows) cultivars helps to predict their cultural requirements. Eighteen accessions representing 15 cultivars, 14 accessions of 7 species, and 5 accessions of an F1 hybrid between the putative parents of the cultivars were sampled for morphological variation and for randomly amplified polymorphic DNA (RAPD) fingerprint variation. Species-specific molecular markers were identified from the RAPD profiles. Chimeral elements were not distinguishable by RAPD analysis. Principal component analysis identified the majority of the cultivars to be selections of hybrid origin, probably from a narrow genetic base. Two cultivars were derived directly from individual species. The resolving power of RAPD markers and morphology was similar although RAPD data offered greater ability to ascribe parentage while morphology offered optimal discrimination of cultivar selections.

Intra- and interspecific variation in wood density and fine-scale spatial distribution of stand-level wood density in a northern Thai tropical montane forest

2009 ◽  
Vol 25 (4) ◽  
pp. 359-370 ◽  
Author(s):  
Witchaphart Sungpalee ◽  
Akira Itoh ◽  
Mamoru Kanzaki ◽  
Kriangsak Sri-ngernyuang ◽  
Hideyuki Noguchi ◽  
...  
Keyword(s):  
Growth Rate ◽  
Intraspecific Variation ◽  
Wood Density ◽  
Spatial Association ◽  
Interspecific Variation ◽  
Maximum Diameter ◽  
Individual Species ◽  
Size Growth ◽  
Sapling Growth ◽  
Species Specific

Abstract:Tropical tree wood density is often related to other species-specific functional traits, e.g. size, growth rate and mortality. We would therefore expect significant associations within tropical forests between the spatial distributions of stand-level wood density and micro-environments when interspecific variation in wood density is larger than intraspecific variation and when habitat-based species assembly is important in the forest. In this study, we used wood cores collected from 515 trees of 72 species in a 15-ha plot in northern Thailand to analyse intra- and interspecific variation in wood density and the spatial association of stand-level wood density. Intraspecific variation was lower than interspecific variation (20% vs. 80% of the total variation), indicating that species-specific differences in wood density, rather than phenotypic plasticity, are the major source of variation in wood density at the study site. Wood density of individual species was significantly negatively related to maximum diameter, growth rate of sapling diameter and mortality of saplings. Stand-level mean wood density was significantly negatively related to elevation, slope convexity, sapling growth rate and sapling mortality, and positively related to slope inclination. East-facing slopes had significantly lower stand-level mean wood densities than west-facing slopes. We hypothesized that ridges and east-facing slopes in the study forest experience strong and frequent wind disturbance, and that this severe impact may lead to faster stand turnover, creating conditions that favour fast-growing species with low wood density.

scholarly journals Diversity and Interrelations Among the Constitutive VOC Emission Blends of Four Broad-Leaved Tree Species at Seedling Stage

2021 ◽  
Vol 12 ◽  
Author(s):  
Anne Charlott Fitzky ◽  
Arianna Peron ◽  
Lisa Kaser ◽  
Thomas Karl ◽  
Martin Graus ◽  
...  
Keyword(s):  
Tree Species ◽  
Mevalonate Pathway ◽  
Shikimate Pathway ◽  
Principal Component ◽  
Green Leaf Volatiles ◽  
Emission Rates ◽  
Lipoxygenase Pathway ◽  
Leaf Volatiles ◽  
Species Specific ◽  
And Function

Volatile organic compounds (VOCs) emitted by plants consist of a broad range of gasses which serve purposes such as protecting against herbivores, communicating with insects and neighboring plants, or increasing the tolerance to environmental stresses. Evidence is accumulating that the composition of VOC blends plays an important role in fulfilling these purposes. Constitutional emissions give insight into species-specific stress tolerance potentials and are an important first step in linking metabolism and function of co-occurring VOCs. Here, we investigate the blend composition and interrelations among co-emitted VOCs in unstressed seedlings of four broad-leaved tree species, Quercus robur, Fagus sylvatica, Betula pendula, and Carpinus betulus. VOCs of Q. robur and F. sylvatica mainly emitted isoprene and monoterpenes, respectively. B. pendula had relatively high sesquiterpene emission; however, it made up only 1.7% of its total emissions while the VOC spectrum was dominated by methanol (∼72%). C. betulus was emitting methanol and monoterpenes in similar amounts compared to other species, casting doubt on its frequent classification as a close-to-zero VOC emitter. Beside these major VOCs, a total of 22 VOCs could be identified, with emission rates and blend compositions varying drastically between species. A principal component analysis among species revealed co-release of multiple compounds. In particular, new links between pathways and catabolites were indicated, e.g., correlated emission rates of methanol, sesquiterpenes (mevalonate pathway), and green leaf volatiles (hexanal, hexenyl acetate, and hexenal; lipoxygenase pathway). Furthermore, acetone emissions correlated with eugenol from the Shikimate pathway, a relationship that has not been described before. Our results thus indicate that certain VOC emissions are highly interrelated, pointing toward the importance to improve our understanding of VOC blends rather than targeting dominant VOCs only.

Structure and function of neural networks in the retina

1988 ◽  
Vol 46 ◽  
pp. 26-27
Author(s):  
Peter Sterling
Keyword(s):  
Ganglion Cells ◽  
Three Dimensional ◽  
Structure And Function ◽  
Synaptic Connections ◽  
Visual Axis ◽  
One Dimensional ◽  
Cat Retina ◽  
Ultrathin Sections ◽  
And Function ◽  
Insight Into

The synaptic connections in cat retina that link photoreceptors to ganglion cells have been analyzed quantitatively. Our approach has been to prepare serial, ultrathin sections and photograph en montage at low magnification (˜2000X) in the electron microscope. Six series, 100-300 sections long, have been prepared over the last decade. They derive from different cats but always from the same region of retina, about one degree from the center of the visual axis. The material has been analyzed by reconstructing adjacent neurons in each array and then identifying systematically the synaptic connections between arrays. Most reconstructions were done manually by tracing the outlines of processes in successive sections onto acetate sheets aligned on a cartoonist's jig. The tracings were then digitized, stacked by computer, and printed with the hidden lines removed. The results have provided rather than the usual one-dimensional account of pathways, a three-dimensional account of circuits. From this has emerged insight into the functional architecture.

Quantitative Analysis Of X-Ray Images From Geological Materials

1990 ◽  
Vol 48 (2) ◽  
pp. 244-245
Author(s):  
J. M. Paque ◽  
R. Browning ◽  
P. L. King ◽  
P. Pianetta
Keyword(s):  
Quantitative Analysis ◽  
Bulk Composition ◽  
Principal Component ◽  
Analytical Description ◽  
Bulk Sample ◽  
Geological Samples ◽  
X Ray ◽  
Software And Hardware ◽  
And Storage ◽  
Insight Into

Geological samples typically contain many minerals (phases) with multiple element compositions. A complete analytical description should give the number of phases present, the volume occupied by each phase in the bulk sample, the average and range of composition of each phase, and the bulk composition of the sample. A practical approach to providing such a complete description is from quantitative analysis of multi-elemental x-ray images.With the advances in recent years in the speed and storage capabilities of laboratory computers, large quantities of data can be efficiently manipulated. Commercial software and hardware presently available allow simultaneous collection of multiple x-ray images from a sample (up to 16 for the Kevex Delta system). Thus, high resolution x-ray images of the majority of the detectable elements in a sample can be collected. The use of statistical techniques, including principal component analysis (PCA), can provide insight into mineral phase composition and the distribution of minerals within a sample.

Computational Approaches to Predict the Non-canonical DNAs

2019 ◽  
Vol 14 (6) ◽  
pp. 470-479 ◽  
Author(s):  
Nazia Parveen ◽  
Amen Shamim ◽  
Seunghee Cho ◽  
Kyeong Kyu Kim
Keyword(s):  
Computational Methods ◽  
Genetic Instability ◽  
Computational Prediction ◽  
Structure And Function ◽  
Sequence Motifs ◽  
Computational Approaches ◽  
Functional Roles ◽  
And Function ◽  
Genetic Events ◽  
Insight Into

Background: Although most nucleotides in the genome form canonical double-stranded B-DNA, many repeated sequences transiently present as non-canonical conformations (non-B DNA) such as triplexes, quadruplexes, Z-DNA, cruciforms, and slipped/hairpins. Those noncanonical DNAs (ncDNAs) are not only associated with many genetic events such as replication, transcription, and recombination, but are also related to the genetic instability that results in the predisposition to disease. Due to the crucial roles of ncDNAs in cellular and genetic functions, various computational methods have been implemented to predict sequence motifs that generate ncDNA. Objective: Here, we review strategies for the identification of ncDNA motifs across the whole genome, which is necessary for further understanding and investigation of the structure and function of ncDNAs. Conclusion: There is a great demand for computational prediction of non-canonical DNAs that play key functional roles in gene expression and genome biology. In this study, we review the currently available computational methods for predicting the non-canonical DNAs in the genome. Current studies not only provide an insight into the computational methods for predicting the secondary structures of DNA but also increase our understanding of the roles of non-canonical DNA in the genome.

scholarly journals Inheritable testicular metabolic memory of high-fat diet causes transgenerational sperm defects in mice

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Luís Crisóstomo ◽  
Ivana Jarak ◽  
Luís P. Rato ◽  
João F. Raposo ◽  
Rachel L. Batterham ◽  
...  
Keyword(s):  
Sperm Quality ◽  
Feeding Habits ◽  
Reproductive Function ◽  
Principal Component ◽  
Testicular Tissue ◽  
Sperm Parameters ◽  
Metabolic Memory ◽  
High Fat ◽  
And Function ◽  
The Impact

AbstractThe consumption of energy-dense diets has contributed to an increase in the prevalence of obesity and its comorbidities worldwide. The adoption of unhealthy feeding habits often occurs at early age, prompting the early onset of metabolic disease with unknown consequences for reproductive function later in life. Recently, evidence has emerged regarding the intergenerational and transgenerational effects of high-fat diets (HFD) on sperm parameters and testicular metabolism. Hereby, we study the impact of high-fat feeding male mice (F0) on the testicular metabolome and function of their sons (F1) and grandsons (F2). Testicular content of metabolites related to insulin resistance, cell membrane remodeling, nutritional support and antioxidative stress (leucine, acetate, glycine, glutamine, inosine) were altered in sons and grandsons of mice fed with HFD, comparing to descendants of chow-fed mice. Sperm counts were lower in the grandsons of mice fed with HFD, even if transient. Sperm quality was correlated to testicular metabolite content in all generations. Principal Component Analysis of sperm parameters and testicular metabolites revealed an HFD-related phenotype, especially in the diet-challenged generation and their grandsons. Ancestral HFD, even if transient, causes transgenerational “inherited metabolic memory” in the testicular tissue, characterized by changes in testicular metabolome and function.

scholarly journals Signatures of conserved and unique molecular features in Afrotheria

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Arangasamy Yazhini ◽  
Narayanaswamy Srinivasan ◽  
Sankaran Sandhya
Keyword(s):  
Ribosomal Proteins ◽  
Individual Species ◽  
Functional Domain ◽  
Nucleic Acid Binding ◽  
Uncharacterized Protein ◽  
Homologous Proteins ◽  
Functional Roles ◽  
Molecular Features ◽  
Specific Proteins ◽  
Species Specific

AbstractAfrotheria is a clade of African-origin species with striking dissimilarities in appearance and habitat. In this study, we compared whole proteome sequences of six Afrotherian species to obtain a broad viewpoint of their underlying molecular make-up, to recognize potentially unique proteomic signatures. We find that 62% of the proteomes studied here, predominantly involved in metabolism, are orthologous, while the number of homologous proteins between individual species is as high as 99.5%. Further, we find that among Afrotheria, L. africana has several orphan proteins with 112 proteins showing < 30% sequence identity with their homologues. Rigorous sequence searches and complementary approaches were employed to annotate 156 uncharacterized protein sequences and 28 species-specific proteins. For 122 proteins we predicted potential functional roles, 43 of which we associated with protein- and nucleic-acid binding roles. Further, we analysed domain content and variations in their combinations within Afrotheria and identified 141 unique functional domain architectures, highlighting proteins with potential for specialized functions. Finally, we discuss the potential relevance of highly represented protein families such as MAGE-B2, olfactory receptor and ribosomal proteins in L. africana and E. edwardii, respectively. Taken together, our study reports the first comparative study of the Afrotherian proteomes and highlights salient molecular features.

scholarly journals Significance of Mast Cell Formed Extracellular Traps in Microbial Defense

2021 ◽  
Author(s):  
Daniel Elieh Ali Komi ◽  
Wolfgang M. Kuebler
Keyword(s):  
State Of The Art ◽  
Extracellular Dna ◽  
Cellular Mechanisms ◽  
Extracellular Traps ◽  
Synthetic Chemicals ◽  
Dna Strands ◽  
Associated Proteins ◽  
Microbial Defense ◽  
And Function ◽  
Insight Into

AbstractMast cells (MCs) are critically involved in microbial defense by releasing antimicrobial peptides (such as cathelicidin LL-37 and defensins) and phagocytosis of microbes. In past years, it has become evident that in addition MCs may eliminate invading pathogens by ejection of web-like structures of DNA strands embedded with proteins known together as extracellular traps (ETs). Upon stimulation of resting MCs with various microorganisms, their products (including superantigens and toxins), or synthetic chemicals, MCs become activated and enter into a multistage process that includes disintegration of the nuclear membrane, release of chromatin into the cytoplasm, adhesion of cytoplasmic granules on the emerging DNA web, and ejection of the complex into the extracellular space. This so-called ETosis is often associated with cell death of the producing MC, and the type of stimulus potentially determines the ratio of surviving vs. killed MCs. Comparison of different microorganisms with specific elimination characteristics such as S pyogenes (eliminated by MCs only through extracellular mechanisms), S aureus (removed by phagocytosis), fungi, and parasites has revealed important aspects of MC extracellular trap (MCET) biology. Molecular studies identified that the formation of MCET depends on NADPH oxidase-generated reactive oxygen species (ROS). In this review, we summarize the present state-of-the-art on the biological relevance of MCETosis, and its underlying molecular and cellular mechanisms. We also provide an overview over the techniques used to study the structure and function of MCETs, including electron microscopy and fluorescence microscopy using specific monoclonal antibodies (mAbs) to detect MCET-associated proteins such as tryptase and histones, and cell-impermeant DNA dyes for labeling of extracellular DNA. Comparing the type and biofunction of further MCET decorating proteins with ETs produced by other immune cells may help provide a better insight into MCET biology in the pathogenesis of autoimmune and inflammatory disorders as well as microbial defense.

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