Plumage Phenotype Research Articles

A sex chromosome polymorphism maintains divergent plumage phenotypes between extensively hybridizing yellowhammers (Emberiza citrinella) and pine buntings (E. leucocephalos).

Under allopatric speciation, populations of a species become isolated by a geographic barrier and develop reproductive isolation through genetic differentiation. When populations meet in secondary contact, the strength of evolved reproductive barriers determines the extent of hybridization and whether the populations will continue to diverge or merge together. The yellowhammer (Emberiza citrinella) and pine bunting (E. leucocephalos) are avian sister species that diverged in allopatry on either side of Eurasia during the Pleistocene glaciations. Though they differ greatly in plumage and form distinct genetic clusters in allopatry, these taxa show negligible mitochondrial DNA differentiation and hybridize extensively where they overlap in central Siberia, lending uncertainty to the state of reproductive isolation in the system. To assess the strength of reproductive barriers between taxa, we examined genomic differentiation across the system. We found that extensive admixture has occurred in sympatry, indicating that reproductive barriers between taxa are weak. We also identified a putative Z chromosome inversion region that underlies plumage variation in the system, with the 'pine bunting' haplotype showing dominance over the 'yellowhammer' haplotype. Our results suggest that yellowhammers and pine buntings are currently at a crossroads and that evolutionary forces may push this system towards either continued differentiation or population merging. However, even if these taxa merge, recombination suppression between putative chromosome Z inversion haplotypes may maintain divergent plumage phenotypes within the system. In this way, our findings highlight the important role hybridization plays in increasing the genetic and phenotypic variation as well as the evolvability of a system.

Dark Morph of the Oriental Honey-Buzzard (Pernis ptilorhynchus orientalis) is Attributable to Specific MC1R Haplotypes.

A thorough understanding of the development of complex plumages in birds necessitates the acquisition of genetic data pertaining to the mechanism underlying this phenomenon from various avian species. The oriental honey-buzzard (Pernis ptilorhynchus orientalis), a tropical summer migrant to Northeast Asia, including Japan, exemplifies this aspect owing to the diversity of its ventral coloration and intra-feather barring patterns. However, genetic polymorphism responsible for this diversity has not been identified yet. This study aimed to investigate the link between dark-plumed phenotypes of this subspecies and haplotypes of the melanocortin-1-receptor (MC1R) gene. A draft sequence of MC1R was constructed using next generation sequencing and subsequently amplified using designed polymerase chain reaction (PCR) primers. The genome sequences of 32 honey-buzzard individuals were determined using PCR, and 12 MC1R haplotype sequences were obtained. Among these haplotypes, we found that unique haplotypes with nine non-synonymous substitutions and four or five synonymous substitutions in the coding region had a perfect correlation with the dark-plumed phenotype. The lack of correlation between the genotype of ASIP coding region and plumage phenotype reiterated that the dark morph is attributable to specific MC1R haplotypes. The absence of a correlation between genetic polymorphisms of MC1R and the intra-feather barring patterns, as well as the diversity observed within lighter ground color classes (pale and intermediate), implies the involvement of alternative molecular mechanisms in the manifestation of the aforementioned phenotypes.

Association between the gut microbiome and carotenoid plumage phenotype in an avian hybrid zone.

Vertebrates host complex microbiomes that impact their physiology. In many taxa, including colourful wood-warblers, gut microbiome similarity decreases with evolutionary distance. This may suggest that as host populations diverge, so do their microbiomes, because of either tight coevolutionary dynamics, or differential environmental influences, or both. Hybridization is common in wood-warblers, but the effects of evolutionary divergence on the microbiome during secondary contact are unclear. Here, we analyse gut microbiomes in two geographically disjunct hybrid zones between blue-winged warblers (Vermivora cyanoptera) and golden-winged warblers (Vermivora chrysoptera). We performed 16S faecal metabarcoding to identify species-specific bacteria and test the hypothesis that host admixture is associated with gut microbiome disruption. Species identity explained a small amount of variation between microbiomes in only one hybrid zone. Co-occurrence of species-specific bacteria was rare for admixed individuals, yet microbiome richness was similar among admixed and parental individuals. Unexpectedly, we found several bacteria that were more abundant among admixed individuals with a broader deposition of carotenoid-based plumage pigments. These bacteria are predicted to encode carotenoid biosynthesis genes, suggesting birds may take advantage of pigments produced by their gut microbiomes. Thus, host admixture may facilitate beneficial symbiotic interactions which contribute to plumage ornaments that function in sexual selection.

Whole genome resequencing reveals genomic regions related to red plumage in ducks

Plumage color is a characteristic trait of ducks that originates as a result of natural and artificial selection. As a conspicuous phenotypic feature, it is a breed characteristic. Previous studies have identified some genes associated with the formation of black and white plumage in ducks. However, studies on the genetic basis underlying the red plumage phenotype in ducks are limited. Here, genome-wide association analysis (GWAS) and selection signal detection (Fst, θπ ratio, and cross-population composite likelihood ratio [XP-CLR]) were conducted to identify candidate regions and genes underlying duck plumage color phenotype. Selection signal detection revealed 29 overlapping genes (including ENPP1 and ULK1) significantly associated with red plumage color in Ji'an Red ducks. ENSAPLG00000012679, ESRRG, and SPATA5 were identified as candidate genes associated with red plumage using GWAS. Selection signal detection revealed that 19 overlapping genes (including GMDS, PDIA6, and ODC1) significantly correlated with light brown plumage in Brown Tsaiya ducks. GWAS to narrow down the significant regions further revealed nine candidate genes (AKT1, ATP6V1C2, GMDS, LRP4, MAML3, PDIA6, PLD5, TMEM63B, and TSPAN8). Notably, in Brown Tsaiya ducks, GMDS, ODC1, and PDIA6 exhibit significantly differentiated allele frequencies among other feather-colored ducks, while in Ji'an Red ducks, ENSAPLG00000012679 has different allele frequency distributions compared with that in other feather-colored ducks. This study offers new insights into the variation and selection of the red plumage phenotype using GWAS and selective signals.

Duck pan-genome reveals two transposon insertions caused bodyweight enlarging and white plumage phenotype formation during evolution.

Structural variations (SVs) are a major source of domestication and improvement traits. We present the first duck pan-genome constructed using five genome assemblies capturing ∼40.98 Mb new sequences. This pan-genome together with high-depth sequencing data (∼46.5×) identified 101,041 SVs, of which substantial proportions were derived from transposable element (TE) activity. Many TE-derived SVs anchoring in a gene body or regulatory region are linked to duck's domestication and improvement. By combining quantitative genetics with molecular experiments, we, for the first time, unraveled a 6945 bp Gypsy insertion as a functional mutation of the major gene IGF2BP1 associated with duck bodyweight. This Gypsy insertion, to our knowledge, explains the largest effect on bodyweight among avian species (27.61% of phenotypic variation). In addition, we also examined another 6634 bp Gypsy insertion in MITF intron, which triggers a novel transcript of MITF, thereby contributing to the development of white plumage. Our findings highlight the importance of using a pan-genome as a reference in genomics studies and illuminate the impact of transposons in trait formation and livestock breeding.

FIRST RECORD OF A CYANISTIC (BLUE) PLUMAGE ABNORMALITY IN ORANGE-FRONTED PARAKEETS EUPSITTULA CANICULARIS IN MEXICO

Pigmentary coloration in bird plumage involves several pigment types. In addition, Psittacidae species (parrots and allied) synthetize their own yellow pigment, psittacin (psittacofulvin), which is normally present in green feathers. The inability to synthetize psittacine, due to a gene mutation, results in a cyanistic —or blue— plumage phenotype. We present the first record of a cyanistic (blue) abnormality in the plumage of the Orange-fronted Parakeet Eupsittula canicularis in Mexico. Two young blue parakeets were removed from their nest in 2023 and kept as pets. Both birds lacked the typical green coloration and displayed extensive blue plumage on the entire body. The frequency of psittacin mutations in wild Psittacidae populations is unknown, but the alleles involved must be quite rare. Further studies are needed to understand the biology and ecology of the species in relation to possible population declines that could potentially increase the homozygous frequency for the recessive blue allele.

Association analysis of PMEL gene expression and single nucleotide polymorphism with plumage color in quail

To explore the relationship between PMEL gene and quail plumage color, to provide a reference for subsequent quail plumage color breeding. In this experiment, RT-qPCR technology was used to analyze the relative mRNA expression levels of Korean quail (maroon) and Beijing white quail embryos at different developmental stages. Two SNPs in PMEL gene were screened based on the RNA-Seq data of skin tissues of Korean quail and Beijing white quail during embryonic stage. The KASP technology was used for genotyping in the resource population and correlation analysis was carried out with the plumage color traits of quail. Finally, the bioinformatics technology was used to predict the effects of these two SNPs on the structure and function of the encoded protein. The results showed that the expression levels of PMEL gene during the embryonic development of Beijing white quail were extremely significantly higher than that of Korean quail (p < 0.01). The frequency distribution of the three genotypes (AA, AB, and BB) of the Beijing white quail at the c. 1030C > T and c. 1374A > G mutation sites were extremely significantly different from that of the Korean quail (p < 0.01). And there was a significant correlation between the c. 1374A > G mutation site with white plumage phenotype. Bioinformatics analysis showed that SNP1 (c. c1030t) located in exon 6 was a harmful mutation site, and SNP2 (c. a1374g) located in exon 7 was a neutral mutation site. Protein conservation prediction showed that the coding protein P344S site caused by SNP1 (c. c1030t) site and the coding protein I458M site caused by SNP2 (c. g2129a) site were non-conservative sites. The results of this experiment showed that the PMEL gene was associated with the plumage color traits of quail and could be used as a candidate gene for studying the plumage color of quail.

Genetic fine-mapping reveals single nucleotide polymorphism mutations in the MC1R regulatory region associated with duck melanism.

Birds are among the most colourful terrestrial vertebrates, with various plumage colours and patterns. We conducted a genome-wide association study (GWAS) on an intercross F2 population of Pekin ducks and mallards (n=722) and identified a 1.57-Mb genetic region (Chr11: 20,176,480-21,750,101 bp) related to duck melanism. Fine mapping by linkage disequilibrium (LD) and FST analysis narrowed the final candidate region to a region of 22,500 bp (Chr11: 20,677,500-20,700,000 bp) including three coding genes, TCF25, MC1R and TUBB3. Combined with transcriptome and qRT-PCR analysis, MC1R was identified as the unique genetic locus responsible for black plumage in ducks, and it was significantly more highly expressed in the feather bulbs of black ducks. We also identified 52G > A (Chr11: 20,696,354G > A) and 376G > A (Chr11: 20,696,678G > A) mutations in the MC1R coding region that have been widely studied in ducks. In addition, structural variations (SVs) were screened by nanopore sequencing, and no significant SV was found to be associated with the duck black plumage trait. However, we identified four novel single nucleotide polymorphisms in the MC1R regulator region (Chr11: 20,678,412G > A, Chr11: 20,679,236G > A, Chr11: 20,692,496 A > G and Chr11: 20,692,791 A > G) that had a strong association with the black plumage phenotype of ducks and combined with potential changes in transcription binding affinities. The luciferase reporter gene assay demonstrated that Chr11: 20,678,412G > A and Chr11: 20,679,236G > A led to significant promoter activity changes. Our research emphasizes the importance of MC1R regulatory region mutation in determining the duck black plumage phenotype, and these results expand our understanding of the genetic mechanism underlying duck plumage colour.

Association analysis of melanophilin (MLPH) gene expression and polymorphism with plumage color in quail.

We explore the relationship between the melanophilin (MLPH) gene and quail plumage color and provide a reference for subsequent quail plumage color breeding. In this experiment, real-time quantitative PCR (RT-qPCR) technology was used to analyze the relative mRNA expression levels of Korean quail (maroon) and Beijing white quail embryos at different developmental stages. Two single-nucleotide polymorphisms (SNPs) in the MLPH gene were screened based on the RNA-sequencing (RNA-Seq) data of skin tissues of Korean quail and Beijing white quail during the embryonic stage. Kompetitive allele-specific PCR (KASP) technology was used for genotyping in the resource population, and correlation analysis was carried out with the plumage color traits of quail. Finally, bioinformatics was used to predict the effects of these two SNPs on the structure and function of the encoded protein. The results showed that the expression level of the MLPH gene during embryonic development of Beijing white quail was significantly higher than that of Korean quail ( ). The frequency distribution of the three genotypes (CC, CA and AA) of the Beijing white quail at the c.1807C A mutation site was significantly different from that of the Korean quail ( ). The frequency distribution of the three genotypes (GG, GA and AA) of the Beijing white quail at the c.2129G A mutation site was significantly different from that of the Korean quail ( ). And there was a significant correlation between the c.1807C A mutation site and the white plumage phenotype. Bioinformatics showed that SNP1 (c.1807C A) was a neutral mutation and that SNP2 (c.2129G A) was a deleterious mutation. The prediction of protein conservation showed that the mutation sites of coding proteins R603S and G710D caused by SNP1 (c.1807C A) and SNP2 (c.2129G A) were highly conserved.

Phenotypic Characters and TYRP1 Polymorphism of F4 Golden Kamper Hybrid Chickens (Gallus gallus domesticus Linnaeus, 1758)

Golden Kamper is a local meat-typed chicken with four generations of Pelung male and Layer female selective breeding. This chicken has various plumage colors and patterns. Therefore, the desired plumage color is red barred plumage (B1). In chickens, the missense mutation in the Tyrosinase-related-proteins 1 (TYRP1) causes a chocolate color plumage (choc) with an epistatic effect on barred plumage. The current study aimed to observe the growth of 16 chickens from hatching until 49 days of age to investigate the phenotypic characteristics, especially plumage color at 49-day-old chickens, then to determine the effect of the TYRP1 polymorphism on F4 Golden Kamper phenotypes. The methods used in this study included selective breeding among F3 Golden Kamper, collection of F3 Golden Kamper's eggs, then rearing the day-old chickens of F4 Golden Kamper. Phenotypic data were collected and blood collection was performed for DNA isolation, DNA amplification, and sequencing. Of 16 F4 Golden Kamper, all chickens had a uniform comb type of single (rprp, 100%). The produced shank colors were white (31.25%), yellow (62.5%), and blackish gray (6.25%). The plumage colors were red barred (12.5%), white barred (12.5%), brown (68.75%), and chocolate (6.25%). The bodyweight of F4 Golden Kamper at the age of 7 weeks reached 597.3 g. The morphometric results indicated that F4 Golden Kamper had the same posture and body proportions as Pelung chickens, however, with a higher weight. Fourteen substitutions were found in the TYRP1 fragment of F4 Golden Kamper. The single nucleotide polymorphisms (SNP) had no correlation with the chocolate plumage phenotype in F4 Golden Kamper. The evaluated SNPs in TYRP1 were not associated with the brown plumage color phenotype.

INDEPENDENT OBSERVATIONS OF PHAEOMELANIC MALES OF THE VARIABLE SEEDEATER (SPOROPHILA CORVINA) WITH COMMENTS ABOUT ITS POTENTIAL FOR EVOLUTIONARY DIVERGENCE

Plumage coloration largely depends on the type and concentration of pigments present in feathers. Therefore, changes in pigment deposition may result in aberrant colorations, which, in turn, will likely interfere with the plumage color’s function (e.g., signaling, protection). Published records of aberrant plumage colors underestimate the type and frequency of these phenotypes, especially in the tropics. Here, we report five independent observations of phaeomelanic males of the Variable Seedeater (Sporophila corvina), in which typically white feathers were instead chestnut-red, likely due to the deposition of phaeomelanin. Our observations add to previous reports of aberrant melanin-based coloration in this species, suggesting that genomic region(s) influencing the expression of phaeomelanin are a biased target for mutations. Because mutations affecting the regulation of melanin deposition result in novel plumage phenotypes, we discuss aberrant phenotypes as an important source of variation fueling rapid divergence among populations of this avian clade.

Wildfire affects expression of male sexual plumage through suppressed testosterone circulation in a tropical songbird

Natural disturbances like drought and wildfires are expected to increase in prevalence, so understanding how organisms are affected is a key goal for conservationists and biologists alike. While many studies have illustrated long‐term effects of perturbations on survival and reproduction, little is known of short‐term effects to physiology and sexual signal expression. Ornamental traits have been proposed as reliable indicators of environmental health, yet studies are lacking in the context of natural disturbances. Here we present short‐term (7–65 days) responses of male red‐backed fairywrens Malurus melanocephalus to wildfire near the onset of the typical breeding season. Young males of this species are characterized by plastic expression of sexual plumage phenotypes depending on circulating testosterone and body condition. Using two populations with fairywren captures before and after separate wildfires we illustrate that wildfire suppressed molt into ornamented plumage. Neither baseline plasma corticosterone or furcular fat stores were affected by fire. However, fire seemed to interfere with the termporal increase in plasma testosterone during the pre‐breeding season, leading to a lower proportion of males molting into ornamented plumage. Collectively, these findings suggest that wildfires inhibit or greatly delay acquisition of ornamentation in males through enduring suppression of testosterone circulation.

Genomic phylogeography of the White-crowned Manakin Pseudopipra pipra (Aves: Pipridae) illuminates a continental-scale radiation out of the Andes

The complex landscape history of the Neotropics has generated opportunities for population isolation and diversification that place this region among the most species-rich in the world. Detailed phylogeographic studies are required to uncover the biogeographic histories of Neotropical taxa, to identify evolutionary correlates of diversity, and to reveal patterns of genetic connectivity, disjunction, and potential differentiation among lineages from different areas of endemism. The White-crowned Manakin (Pseudopipra pipra) is a small suboscine passerine bird that is broadly distributed through the subtropical rainforests of Central America, the lower montane cloud forests of the Andes from Colombia to central Peru, the lowlands of Amazonia and the Guianas, and the Atlantic forest of southeast Brazil. Pseudopipra is currently recognized as a single, polytypic biological species. We studied the effect of the Neotropical landscape on genetic and phenotypic differentiation within this species using genomic data derived from double digest restriction site associated DNA sequencing (ddRAD), and mitochondrial DNA. Most of the genetic breakpoints we identify among populations coincide with physical barriers to gene flow previously associated with avian areas of endemism. The phylogenetic relationships among these populations imply a novel pattern of Andean origination for this group, with subsequent diversification into the Amazonian lowlands. Our analysis of genomic admixture and gene flow reveals a complex history of introgression between some western Amazonian populations. These reticulate processes confound our application of standard concatenated and coalescent phylogenetic methods and raise the question of whether a lineage in the western Napo area of endemism should be considered a hybrid species. Lastly, analysis of variation in vocal and plumage phenotypes in the context of our phylogeny supports the hypothesis that Pseudopipra is a species-complex composed of at least 8, and perhaps up to 17 distinct species which have arisen in the last ~2.5 Ma.

Being Dark is Better: A Feral Pigeon Plumage Polymorphism as a Response to Urban Environments in Slovakia

Abstract The purpose of this study was to determine the distribution and plumage phenotypes of the feral pigeon, Columba livia forma urbana (Gmelin, 1789), in Slovakia. Censuses carried out in the built-up areas of 16 towns and cities from November to February (2012–2018) counted and evaluated 3,123 individual birds. The most frequent were melanic colored birds (checker, T-pattern and spread phenotypes), which predominated in the population (51.6%, n = 1,613), followed by paler ones (42.1%, n = 1,316) and other types (6.2%, n = 194). A statistically significant difference was confirmed among the melanic and paler plumage phenotypes (χ2 = 81.49, df = 15, p &lt; 0.0001). Correlation confirmed the different importance of city area and human density on the maintenance of dark and/or pale pigeons living in cities.

Extensive hybridization between two Andean warbler species with shallow divergence in mtDNA

AbstractStudying processes acting on differentiated populations upon secondary contact, such as hybridization, is important to comprehensively understand how species are formed and maintained over time. However, avian speciation studies in the tropical Andes have largely focused on the role of topographic and ecological barriers promoting divergence in allopatry, seldom examining hybridization and introgression. We describe a hybrid zone involving 2 closely related Andean warblers (Parulidae), the Golden-fronted Redstart (Myioborus ornatus), and the Spectacled Redstart (Myioborus melanocephalus). Geographic ranges of these species abut near the Colombia-Ecuador border and many specimens from the region exhibit intermediate phenotypes, but a formal description of phenotypic variation in the contact zone was heretofore lacking. We collected specimens across a transect encompassing the area where ranges abut and areas where only “pure” parental phenotypes of M. ornatus chrysops and M. melanocephalus ruficoronatus occur. We described variation in plumage traits including patterns of head and ventral coloration and tail markings based on 321 specimens. To describe genetic variation in the contact zone and over a broader phylogeographic context, we used sequences of the mitochondrial ND2 gene for 219 individuals across the transect and the entire range of both species, including all subspecies, from Venezuela to Bolivia. We documented a hybrid zone ~200 km wide based on head coloration, where intermediate plumage phenotypes are most common and “pure” forms do not overlap geographically, consistent with extensive hybridization. Across the range of the M. ornatus–M. melanocephalus complex, mitochondrial genetic structure was shallow, with genetic breaks only coinciding clearly with one topographic feature. Such a low genetic structure is striking given the high diversity in plumage phenotypes and the current taxonomy of the group. Our phenotypic data suggest that barriers to hybridization are not strong, and allow us to postulate hypotheses to be tested using forthcoming genomic data.

Territorial males do not discriminate between local and novel plumage phenotypes in a tropical songbird species complex: implications for the role of social selection in trait evolution

Whether novel traits involved in animal communication are favored or not by social selection depends on how receivers respond to them. If alternative traits arise at different locations or the same traits are perceived differently, then populations may diverge even when occupying similar environments. Aggressiveness towards bearers of novel versus familiar traits is informative about how male-male competition may drive phenotypic evolution, yet few studies have tested the function of signaling traits in social selection across populations. We assessed the role of a black pectoral band during territorial contests in two allopatric species of Neotropical passerine birds in the genus Arremon either having or lacking this plumage trait. Field experiments using taxidermic mounts and playback of conspecific songs revealed that males of both species were equally aggressive towards phenotypes bearing or lacking a pectoral band. Although evaluating physiological and social costs of bearing alternative traits and assessing female preferences is required to further examine the roles of social and sexual mechanisms in the evolution of plumage and geographic variation, our results indicate that social selection via male-male interactions is an unlikely driver of phenotypic divergence among populations of Arremon. Social selection via intrasexual competition for resources may drive phenotypic divergence and population differentation in animals, but few studies have tested predictions of this hypothesis by examining how alternative traits varying geographically are perceived in contexts of male-male competition. We assessed the behavioral response of territorial males in two species of Neotropical songbirds to taxidermic mounts having or lacking a black pectoral band, a geographically variable plumage trait. Irrespective of their own phenotype, males of both species were similarly aggressive to potential intruders bearing or lacking the pectoral band. In contrast with work suggesting male-male interactions may mediate trait evolution, our results indicate that pectoral bands in this system are unlikely targets of social selection via contests in which males compete for territories, and call for studies assessing long-term costs of bearing alternative traits or female choice as selective forces driving phenotypic evolution.

Extensive hybridization reveals multiple coloration genes underlying a complex plumage phenotype.

Coloration is an important target of both natural and sexual selection. Discovering the genetic basis of colour differences can help us to understand how this visually striking phenotype evolves. Hybridizing taxa with both clear colour differences and shallow genomic divergences are unusually tractable for associating coloration phenotypes with their causal genotypes. Here, we leverage the extensive admixture between two common North American woodpeckers-yellow-shafted and red-shafted flickers-to identify the genomic bases of six distinct plumage patches involving both melanin and carotenoid pigments. Comparisons between flickers across approximately 7.25 million genome-wide SNPs show that these two forms differ at only a small proportion of the genome (mean FST = 0.008). Within the few highly differentiated genomic regions, we identify 368 SNPs significantly associated with four of the six plumage patches. These SNPs are linked to multiple genes known to be involved in melanin and carotenoid pigmentation. For example, a gene (CYP2J19) known to cause yellow to red colour transitions in other birds is strongly associated with the yellow versus red differences in the wing and tail feathers of these flickers. Additionally, our analyses suggest novel links between known melanin genes and carotenoid coloration. Our finding of patch-specific control of plumage coloration adds to the growing body of literature suggesting colour diversity in animals could be created through selection acting on novel combinations of coloration genes.

Plumage colours Stability in Inbreed Pelung Chicken

Pelung is one of the most importance local chicken in Indonesia. Genetic introgression and inbreeding depression were the major threat for local chicken gene pool. The objective of this research was to investigate the effect of serial inbreeding mating to plumage colours of Pelung chicken. Pure Pelung chicken which purchased from Cianjur sub-district was undergo full-sib mating through five generation. All offspring phenotypes was recorded. The results show gradual plumage phenotype change of inbreed Pelung chicken. Initially, adult male chicken had Black-red coloured as wildtype (WT) shifted to partridge and black-silver coloured in later generations. The current findings indicating that inbreeding made recessive traits to be expressed which some of them might had deleterious effect. Random mating should be maintained to preserve genetics stability of Pelung chicken

Testosterone induces plumage ornamentation followed by enhanced territoriality in a female songbird

AbstractWe know little of the proximate mechanisms underlying the expression of signaling traits in female vertebrates. Across males, the expression of sexual and competitive traits, including ornamentation and aggressive behavior, is often mediated by testosterone. In the white-shouldered fairywren (Malurus alboscapulatus) of New Guinea, females of different subspecies differ in the presence or absence of white shoulder patches and melanic plumage, whereas males are uniformly ornamented. Previous work has shown that ornamented females circulate more testosterone and exhibit more territorial aggression than do unornamented females. We investigated the degree to which testosterone regulates the expression of ornamental plumage and territorial behavior by implanting free-living unornamented females with testosterone. Every testosterone-treated female produced a male-like cloacal protuberance, and 15 of 20 replaced experimentally plucked brown with white shoulder patch feathers but did not typically produce melanic plumage characteristic of ornamented females. Testosterone treatment did not elevate territorial behavior prior to the production of the plumage ornament or during the active life of the implant. However, females with experimentally induced ornamentation, but exhausted implants, increased the vocal components of territory defense relative to the pretreatment period and also to testosterone-implanted females that did not produce ornamentation. Our results suggest that testosterone induces partial acquisition of the ornamental female plumage phenotype and that ornament expression, rather than testosterone alone, results in elevations of some territorial behaviors.

RAI14in the blood featherregulates chicken pigmentation.

A genome-wide association study (GWAS) was performed on a resource family consisting of white and colored chickens for identification of genes related to plumage coloration using the Fixed and random model Circulating Probability Unification (FarmCPU) package. GWAS identified three chromosomal single-nucleotide polymorphisms (SNPs), demonstrating the polygenic basis of plumage phenotypes. Herein, retinoic acid-induced protein 14 (RAI14), a developmentally regulated gene that encodes a protein containing many ankyrin repeats, was identified as a candidate gene involved in plumage color. In this study, mRNA expression profiles of chicken RAI14 were determined, indel (insertion–deletion) variants were identified, and their association was analyzed in white and colored chickens. RA114 mRNA was expressed in all tissues tested (brain, spleen, liver, heart, oviduct, kidney, lung, pituitary gland, ovary, muscle, feather bulb, and skin). A relatively high RAI14 expression in white feather bulb compared to colored feather bulb () indicated a potential association with plumage color. Additionally, statistical analysis revealed that a 4 bp indel genetic variation in RAI14 was associated with plumage phenotypes (). Together, our analysis of the identification of the RAI14 gene will enable us to understand the genetic mechanisms behind chicken pigmentation.