Sex-Specific Phenotypic Variability and Social Organization in the Chiribaya of Southern Peru

2010 ◽  
Vol 21 (4) ◽  
pp. 375-397 ◽  
Author(s):  
Kenneth C. Nystrom ◽  
Christine M. Malcom
Keyword(s):  
Social Organization ◽  
Phenotypic Variability ◽  
Explanatory Models ◽  
Phenotypic Traits ◽  
Data Set ◽  
Southern Peru ◽  
Yield Information ◽  
The Two Cultures ◽  
Unique Nature ◽  
Biological Relationship

AbstractAnalyses of skeletal phenotypic traits have the potential to yield information pertaining to social organization, such as kinship and residence patterns. In this research, we examine sex-specific phenotypic variability of craniofacial and mandibular metric traits in eight skeletal samples from four sites (San Gerónimo, Chiribaya Alta, Chiribaya Baja, and El Yaral) attributed to the Chiribaya polity (A.D. 772–1350) and a contemporary Ilo-Tumilaca/Cabuza group (El Algodonal) from southern Peru. Through this data set we investigate various aspects of social organization (e.g., postmarital residence patterns) within the Chiribaya polity. We also examine Chiribaya interactions with the contemporaneous, yet culturally distinct, Tumilaca cultural group. The pattern of between-group bias-corrected estimates of biological distances points toward a more distant biological relationship between the two cultures than has previously been reported. Among the Chiribaya groups considered, determinant ratio analyses indicate that males from two cemeteries (Chiribaya Alta Cemetery 4 and Chiribaya Alta Cemetery 7) were significantly more variable than females, suggesting that males were the more mobile sex. Several explanatory models are considered, including a matrilocal residence pattern and the in-migration of males. We also examine the unique nature of results from within Chiribaya Alta, which support the argument made by previous researchers that this site represents a regional political center.

scholarly journals Effects of the domestic thyroid stimulating hormone receptor (TSHR) variant on the hypothalamic-pituitary-thyroid axis and behavior in chicken

Genetics ◽  
2021 ◽  
Vol 217 (1) ◽  
Author(s):  
Amir Fallahshahroudi ◽  
Martin Johnsson ◽  
Enrico Sorato ◽  
S J Kumari A Ubhayasekera ◽  
Jonas Bergquist ◽  
...  
Keyword(s):  
Gene Expression ◽  
Hormone Receptor ◽  
Thyroid Stimulating Hormone ◽  
Phenotypic Traits ◽  
Wild Type ◽  
Data Set ◽  
Red Junglefowl ◽  
Pituitary Thyroid Axis ◽  
And Behavior ◽  
Stimulating Hormone

Abstract Domestic chickens are less fearful, have a faster sexual development, grow bigger, and lay more eggs than their primary ancestor, the red junglefowl. Several candidate genetic variants selected during domestication have been identified, but only a few studies have directly linked them with distinct phenotypic traits. Notably, a variant of the thyroid stimulating hormone receptor (TSHR) gene has been under strong positive selection over the past millennium, but it’s function and mechanisms of action are still largely unresolved. We therefore assessed the abundance of the domestic TSHR variant and possible genomic selection signatures in an extensive data set comprising multiple commercial and village chicken populations as well as wild-living extant members of the genus Gallus. Furthermore, by mean of extensive backcrossing we introgressed the wild-type TSHR variant from red junglefowl into domestic White Leghorn chickens and investigated gene expression, hormone levels, cold adaptation, and behavior in chickens possessing either the wild-type or domestic TSHR variant. While the domestic TSHR was the most common variant in all studied domestic populations and in one of two red junglefowl population, it was not detected in the other Gallus species. Functionally, the individuals with the domestic TSHR variant had a lower expression of the TSHR in the hypothalamus and marginally higher in the thyroid gland than wild-type TSHR individuals. Expression of TSHB and DIO2, two regulators of sexual maturity and reproduction in birds, was higher in the pituitary gland of the domestic-variant chickens. Furthermore, the domestic variant was associated with higher activity in the open field test. Our findings confirm that the spread of the domestic TSHR variant is limited to domesticated chickens, and to a lesser extent, their wild counterpart, the red junglefowl. Furthermore, we showed that effects of genetic variability in TSHR mirror key differences in gene expression and behavior previously described between the red junglefowl and domestic chicken.

scholarly journals Phenotypic characteristics of linear traits of udder and angularity in Holstein-Friesian cows and their correlation with milk yield traits

2020 ◽  
Vol 36 (4) ◽  
pp. 407-416
Author(s):  
Radica Djedovic ◽  
Vladan Bogdanovic ◽  
Dragan Stanojevic ◽  
Hasan Ismael ◽  
Dobrila Jankovic ◽  
...  
Keyword(s):  
Milk Yield ◽  
Phenotypic Variability ◽  
Phenotypic Correlation ◽  
Progeny Testing ◽  
Multiple Traits ◽  
Linear Type ◽  
Data Set ◽  
Holstein Friesian ◽  
Type Traits ◽  
Important Trait

Data set including 10860 primiparous Holstein-Friesian breed cows first calved in the period from 2011 to 2015, was used in determining phenotypic variability and correlation between the traits of milk yield and linearly estimated traits of udder and angularity. The average values obtained for type traits (angularity, fore udder attachment, front teats placement, teats length, udder depth and rear udder height) were 6.47; 5.74; 4.96; 5.20; 5.99 and 6.25, respectively. The values obtained for phenotypic correlations between linear type traits and traits of milk yield ranged from -0.042 (udder depth and milk yield) to 0.335 (fore udder attachment and protein yield). Positive phenotypic correlation (0.293) was recorded also between fore udder attachment and milk yield which is deemed the most important trait of milk yield while the lowest correlation between milk yields was determined in relation to udder depth (-0.033). The results obtained indicate a possibility of applying direct and indirect multiple traits selection which should be conducted within a national progeny-testing programme on Holstein-Friesian bulls by using the method of selection indexes.

scholarly journals Vegetative and reproductive innovations of early land plants: implications for a unified phylogeny

2000 ◽  
Vol 355 (1398) ◽  
pp. 769-793 ◽  
Author(s):  
Karen Sue Renzaglia ◽  
R. Joel Duff ◽  
Daniel L. Nickrent ◽  
David J. Garbary
Keyword(s):  
Phylogenetic Signal ◽  
Phenotypic Variability ◽  
Land Plant ◽  
Land Plants ◽  
Total Evidence ◽  
Data Sets ◽  
Data Set ◽  
Plant Phylogeny ◽  
Male Gametes ◽  
Early Land

As the oldest extant lineages of land plants, bryophytes provide a living laboratory in which to evaluate morphological adaptations associated with early land existence. In this paper we examine reproductive and structural innovations in the gametophyte and sporophyte generations of hornworts, liverworts, mosses and basal pteridophytes. Reproductive features relating to spermatogenesis and the architecture of motile male gametes are overviewed and evaluated from an evolutionary perspective. Phylogenetic analyses of a data set derived from spermatogenesis and one derived from comprehensive morphogenetic data are compared with a molecular analysis of nuclear and mitochondrial small subunit rDNA sequences. Although relatively small because of a reliance on water for sexual reproduction, gametophytes of bryophytes are the most elaborate of those produced by any land plant. Phenotypic variability in gametophytic habit ranges from leafy to thalloid forms with the greatest diversity exhibited by hepatics. Appendages, including leaves, slime papillae and hairs, predominate in liverworts and mosses, while hornwort gametophytes are strictly thalloid with no organized external structures. Internalization of reproductive and vegetative structures within mucilage–filled spaces is an adaptive strategy exhibited by hornworts. The formative stages of gametangial development are similar in the three bryophyte groups, with the exception that in mosses apical growth is intercalated into early organogenesis, a feature echoed in moss sporophyte ontogeny. A monosporangiate, unbranched sporophyte typifies bryophytes, but developmental and structural innovations suggest the three bryophyte groups diverged prior to elaboration of this generation. Sporophyte morphogenesis in hornworts involves non–synchronized sporogenesis and the continued elongation of the single sporangium, features unique among archegoniates. In hepatics, elongation of the sporophyte seta and archegoniophore is rapid and requires instantaneous wall expandability and hydrostatic support. Unicellular, spiralled elaters and capsule dehiscence through the formation of four regular valves are autapomorphies of liverworts. Sporophytic sophistications in the moss clade include conducting tissue, stomata, an assimilative layer and an elaborate peristome for extended spore dispersal. Characters such as stomata and conducting cells that are shared among sporophytes of mosses, hornworts and pteridophytes are interpreted as parallelisms and not homologies. Our phylogenetic analysis of three different data sets is the most comprehensive to date and points to a single phylogenetic solution for the evolution of basal embryophytes. Hornworts are supported as the earliest divergent embryophyte clade with a moss/liverwort clade sister to tracheophytes. Among pteridophytes, lycophytes are monophyletic and an assemblage containing ferns, Equisetum and psilophytes is sister to seed plants. Congruence between morphological and molecular hypotheses indicates that these data sets are tracking the same phylogenetic signal and reinforces our phylogenetic conclusions. It appears that total evidence approaches are valuable in resolving ancient radiations such as those characterizing the evolution of early embryophytes. More information on land plant phylogeny can be found at: http://www.science.siu.edu/landplants/index.html.

scholarly journals Composition and physicochemical properties of outer mucilage from seeds of Arabidopsis natural accessions

AoB Plants ◽  
2019 ◽  
Vol 11 (4) ◽  
Author(s):  
Damien Poulain ◽  
Lucy Botran ◽  
Helen M North ◽  
Marie-Christine Ralet
Keyword(s):  
Genetic Diversity ◽  
Arabidopsis Thaliana ◽  
Physicochemical Properties ◽  
Outer Layer ◽  
Genetic Factors ◽  
Biological Function ◽  
Major Constituent ◽  
Data Set ◽  
Adaptive Trait ◽  
Yield Information

Abstract Arabidopsis thaliana (Arabidopsis) seeds are myxospermous and release two layers of mucilage on imbibition. The outer layer can be extracted with water facilitating the analysis of its major constituent, polysaccharides. The composition and properties of outer mucilage have been determined for 306 natural accessions and six control genotypes to generate a data set comprising six traits measured in four biological replicates for each. Future exploitation of this data is possible in a range of analyses and should yield information concerning genetic diversity, underlying genetic factors and the biological function of mucilage as an adaptive trait.

Global analyses imply that Stenotrophomonas maltophilia biofilms are phenotypically highly diverse despite a common transcriptome profile

2020 ◽  
Author(s):  
Ifey Alio ◽  
Mirja Gudzuhn ◽  
Marie Schölmerich ◽  
Pablo Pérez García ◽  
Christel Vollstedt ◽  
...  
Keyword(s):  
Biofilm Formation ◽  
Stenotrophomonas Maltophilia ◽  
Phenotypic Variability ◽  
Multidrug Resistant ◽  
Clinical Isolates ◽  
Clinical Settings ◽  
Data Set ◽  
Specific Level ◽  
Key Factor ◽  
Fermentative Growth

<p><strong>Stenotrophomonas maltophilia</strong><strong> is one of the most frequently isolated multidrug resistant opportunistic pathogens. It contributes to disease progression in cystic fibrosis patients and is found in wounds, other infected tissues and on catheter surfaces. Only little is known on key processes linked to biofilm formation of S. maltophilia on a broader basis. Thus the aim of this study was the identification of key processes involved in biofilm formation of S. maltophilia on a global level. Therefore, we analyzed biofilm profiles of 300 globally collected clinical and environmental isolates of the main and recently identified lineages Sgn3, Sgn4 and Sm2 - Sm18 (Groeschel et al., 2020). These data together with the 3D structural analysis of a subset of clinical 40 clinical isolates revealed an unexpectedly high phenotypic variability on a strain specific level. Further transcriptome analysis of seven clinical isolates using biofilm grown cells identified a set of 106 shared and coexpressed genes and roughly 30-35 strain-specific genes. Based on these findings S. maltophilia employs a mostly fermentative growth modus under the biofilm conditions and uptake of iron, phosphorous and other metals appears to be of high relevance. Surprisingly, the transcriptome profiles of biofilm versus planktonic cells revealed that only 8.6% of all genes were differentially regulated when both conditions were compared.  This implies that only relatively few genes contribute to the change from planktonic to biofilm life style. Thereby iron uptake appears to be a key factor involved in this metabolic shift. The transcriptome data generated in this study together with the phenotypic and metabolic analysis represent so far the largest data set on S. maltophilia biofilm versus planktonic grown cells. This study now lays the foundation for the identification of new strategies in fighting S. maltophilia infections in clinical settings.</strong></p> <p>Ref:  Gröschel et al., 2020 ,The phylogenetic landscape and nosocomial spread of the multidrug-resistant opportunist Stenotrophomonas maltophilia. Nature Commun. 2020 Apr 27;11(1):2044. doi: 10.1038/s41467-020-15123-0.</p>

scholarly journals Comprehensive phenotypic and statistical based analysis of foxtail millet (Setaria italic L.) lines for parental line selection

2017 ◽  
Vol 6 (11) ◽  
pp. 1736 ◽  
Author(s):  
Chandra Sekhar Akila ◽  
Palakurthi Ramesh ◽  
Gurulakshmi Kola ◽  
Mallikarjuna Gunti ◽  
Puli Chandra Obul Reddy ◽  
...  
Keyword(s):  
Phenotypic Variability ◽  
Foxtail Millet ◽  
Principal Component ◽  
Breeding Systems ◽  
Phenotypic Traits ◽  
Parental Line ◽  
Panicle Length ◽  
Pure Lines ◽  
Total Seed ◽  
Panicle Weight

Minor millets are the small-grained cereals that belong to family Poaceae, with local importance as a food source but are often called as underutilized plant species.   Foxtail millet is one among  the oldest cultivated small diploid, C4 Panicoid, with short life cycle, and inbreeding nature. The genetic diversity of the foxtail millet is important for breeding systems, geographical distribution studies, assist in conservation of genetic resources for high yielding varietal development in breeding programs, expansion of the genetic base and for identification of genes for various phenotypic traits. Keeping in view of this an attempt has made to develop pure lines from local farmers preserved populations and phenotypically characterize them along with four released cultivars.  A total of eleven farmers varieties and four released cultivars were evaluated for seven quantitative traits in complete random block desing at net house conditions.  The maximum coefficient of variation was observed for panicle exertion, followed by number of tillers/plant and panicle weight. High positive significant correlations was observed for Plant height, panicle length, panicle weight and total seed weight with other traits under study. Panicle exertion exhibit negative correlations with panicle length, panicle weight and no of tillers. The results of principal component analysis (PCA) explains variability of 95.43% in the fifteen genotypes for the traits under study that corresponds to first 4 eigen values with greater than 0.60.  The proportions of the total variance explained by the first 4 principal components (PCs) were 42.98%, 71.02%, 85.43% and 95.43% respectively. Wards method based genetic similarity or dissimilarity clustering based on seven morphological traits among the fifteen foxtail millet genotypes was able to separate and grouped them into 2 major clusters I and II.  The genetic and phenotypic variability present in the foxtail millet genotypes give opportunity for plant breeders for effective selection of specific donor lines for foxtail millet improvement.

scholarly journals The splicing regulator Prp31 prevents retinal degeneration in Drosophila by regulating Rhodopsin levels

2018 ◽  
Author(s):  
Malte Lehmann ◽  
Sarita Hebbar ◽  
Behrens Sarah ◽  
Weihua Leng ◽  
Michaela Yuan ◽  
...  
Keyword(s):  
Retinitis Pigmentosa ◽  
Retinal Degeneration ◽  
Human Disease ◽  
Dietary Intervention ◽  
Phenotypic Variability ◽  
Light Stress ◽  
Splicing Factor ◽  
Phenotypic Traits ◽  
Induced Mutations ◽  
Eye Color

AbstractRetinitis pigmentosa (RP) is a clinically heterogeneous disease affecting 1.6 million people worldwide. The second-largest group of genes causing autosomal dominant RP in human encodes regulators of the splicing machinery, but the molecular consequences that link defects in splicing factor genes to the aetiology of the disease remain to be elucidated. Mutations in PRPF31, one of the splicing factors, are linked to RP11. To get insight into the mechanisms by which mutations in this gene lead to retinal degeneration, we induced mutations in the Drosophila orthologue Prp31. Flies heterozygous mutant for Prp31 are viable and develop normal eyes and retina. However, photoreceptors degenerate under light stress, thus resembling the human disease phenotype. Prp31 mutant flies show a high degree of phenotypic variability, similar as reported for human RP11 patients. Degeneration is associated with increased accumulation of rhodopsin 1, both in the rhabdomere and in the cell body. In fact, reducing rhodopsin levels by raising animals in a carotenoid-free medium not only suppressed rhodopsin accumulation, but also retinal degeneration. In addition, our results underscore the relevance of eye color mutations on phenotypic traits, in particular whilst studying a complex process such as retinal degeneration.Article SummaryRetinitis pigmentosa (RP) is a human disease affecting 1.6 million people worldwide. So far >50 genes have been identified that are causally related to RP. Mutations in the splicing factor PRPF31 are linked to RP11. We induced mutations in the Drosophila orthologue Prp31 and show that flies heterozygous for Prp31 undergo light-dependent retinal degeneration. Degeneration is associated with increased accumulation of the light-sensitive molecule, rhodopsin 1. In fact, reducing rhodopsin levels by dietary intervention suppressed retinal degeneration. We believe that this model will help to better understand the aetiology of the human disease.

Quantifying physiological determinants of genetic variation for yield potential in sunflower. SUNFLO: a model-based analysis

2011 ◽  
Vol 38 (3) ◽  
pp. 246 ◽  
Author(s):  
Jérémie Lecoeur ◽  
Richard Poiré-Lassus ◽  
Angélique Christophe ◽  
Benoît Pallas ◽  
Pierre Casadebaig ◽  
...  
Keyword(s):  
Plant Traits ◽  
Phenotypic Variability ◽  
Growth Conditions ◽  
Yield Potential ◽  
Phenotypic Traits ◽  
Genetic Progress ◽  
Potential Growth ◽  
Biotic Stresses ◽  
Respective Contribution ◽  
High Yields

Present work focussed on improving the description of organogenesis, morphogenesis and metabolism in a biophysical plant model (SUNFLO) applied to sunflower (Helianthus annuus L.). This first version of the model is designed for potential growth conditions without any abiotic or biotic stresses. A greenhouse experiment was conducted to identify and estimate the phenotypic traits involved in plant productivity variability of 26 sunflower genotypes. The ability of SUNFLO to discriminate the genotypes was tested on previous results of a field survey aimed at evaluating the genetic progress since 1960. Plants were phenotyped in four directions; phenology, architecture, photosynthesis and biomass allocation. Twelve genotypic parameters were chosen to account for the phenotypic variability. SUNFLO was built to evaluate their respective contribution to the variability of yield potential. A large phenotypic variability was found for all genotypic parameters. SUNFLO was able to account for 80% of observed variability in yield potential and to analyse the phenotypic variability of complex plant traits such as light interception efficiency or seed yield. It suggested that several ways are possible to reach high yields in sunflower. Unlike classical statistical analysis, this modelling approach highlights some efficient parameter combinations used by the most productive genotypes. The next steps will be to evaluate the genetic determinisms of the genotypic parameters.

Engineering Analysis of Ground Motion Records from the 2001 Mw 8.4 Southern Peru Earthquake

2010 ◽  
Vol 26 (2) ◽  
pp. 499-524 ◽  
Author(s):  
Adrian Rodriguez-Marek ◽  
James A. Bay ◽  
Kwangsoo Park ◽  
Gonzalo A. Montalva ◽  
Adel Cortez-Flores ◽  
...  
Keyword(s):  
Shear Wave ◽  
High Frequency ◽  
Ground Motions ◽  
Strong Motion ◽  
Frequency Content ◽  
Engineering Analysis ◽  
Data Set ◽  
Strong Motion Records ◽  
Southern Peru ◽  
High Frequency Content

The Mw 8.4 23 June 2001 Southern Peru earthquake generated intense ground motions in a large region encompassing southern Peru and northern Chile. The earthquake was recorded by seven strong motion stations with peak ground accelerations ranging from 0.04 g to 0.34 g for site-to-fault distances ranging from about 70 km to 220 km. At this time, there are no other strong motion records for an earthquake of this magnitude. Hence, the strong motion data set from this earthquake is unique and of particular interest to engineers dealing with seismic design in subduction regions. This paper presents an engineering analysis of the strong motion records. Shear-wave velocity profiles were measured using Spectral Analysis of Surface Waves methods at four stations. Measured shear-wave velocities are high, indicating that all sites classify as stiff soil sites (Site C) according to the International Building Code classification scheme. The strong motion set is characterized by strong high frequency content at large distances from the fault. Site response contributed at least in part to the observed high frequency content in the ground motions. In general, current attenuation relationships for spectral acceleration underpredicted the observed ground motions.

scholarly journals Phenotypic and Transcriptomic Analyses of Seven Clinical Stenotrophomonas maltophilia Isolates Identify a Small Set of Shared and Commonly Regulated Genes Involved in the Biofilm Lifestyle

2020 ◽  
Vol 86 (24) ◽  
Author(s):  
Ifey Alio ◽  
Mirja Gudzuhn ◽  
Pablo Pérez García ◽  
Dominik Danso ◽  
Marie Charlotte Schoelmerich ◽  
...  
Keyword(s):  
Stenotrophomonas Maltophilia ◽  
Antimicrobial Agents ◽  
Phenotypic Variability ◽  
Single Species ◽  
Clinical Isolates ◽  
Planktonic Cells ◽  
Data Set ◽  
Specific Level ◽  
Content Type ◽  
Small Set

ABSTRACT Stenotrophomonas maltophilia is one of the most frequently isolated multidrug-resistant nosocomial opportunistic pathogens. It contributes to disease progression in cystic fibrosis (CF) patients and is frequently isolated from wounds, infected tissues, and catheter surfaces. On these diverse surfaces S. maltophilia lives in single-species or multispecies biofilms. Since very little is known about common processes in biofilms of different S. maltophilia isolates, we analyzed the biofilm profiles of 300 clinical and environmental isolates from Europe of the recently identified main lineages Sgn3, Sgn4, and Sm2 to Sm18. The analysis of the biofilm architecture of 40 clinical isolates revealed the presence of multicellular structures and high phenotypic variability at a strain-specific level. Further, transcriptome analyses of biofilm cells of seven clinical isolates identified a set of 106 shared strongly expressed genes and 33 strain-specifically expressed genes. Surprisingly, the transcriptome profiles of biofilm versus planktonic cells revealed that just 9.43% ± 1.36% of all genes were differentially regulated. This implies that just a small set of shared and commonly regulated genes is involved in the biofilm lifestyle. Strikingly, iron uptake appears to be a key factor involved in this metabolic shift. Further, metabolic analyses implied that S. maltophilia employs a mostly fermentative growth mode under biofilm conditions. The transcriptome data of this study together with the phenotypic and metabolic analyses represent so far the largest data set on S. maltophilia biofilm versus planktonic cells. This study will lay the foundation for the identification of strategies for fighting S. maltophilia biofilms in clinical and industrial settings. IMPORTANCE Microorganisms living in a biofilm are much more tolerant to antibiotics and antimicrobial substances than planktonic cells are. Thus, the treatment of infections caused by microorganisms living in biofilms is extremely difficult. Nosocomial infections (among others) caused by S. maltophilia, particularly lung infection among CF patients, have increased in prevalence in recent years. The intrinsic multidrug resistance of S. maltophilia and the increased tolerance to antimicrobial agents of its biofilm cells make the treatment of S. maltophilia infection difficult. The significance of our research is based on understanding the common mechanisms involved in biofilm formation of different S. maltophilia isolates, understanding the diversity of biofilm architectures among strains of this species, and identifying the differently regulated processes in biofilm versus planktonic cells. These results will lay the foundation for the treatment of S. maltophilia biofilms.

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