Domestication Process Research Articles

Low Temperature Rather Than Nitrogen Application Mainly Modulates the Floral Initiation of Different Ecotypes of Rapeseed (Brassica napus L.)

Rapeseed has formed three ecological types, namely winter, semi-winter, and spring during the long domestication process. Different ecotypes have different low-temperature requirements for floral initiation. Rapeseed growth has a large demand for nitrogen, and the amount of nitrogen application significantly impacts the number of flowering. Meanwhile, the time of floral imitation determined the quantity of floral bud, the final number of pods, and yield of rapeseed. Therefore, it is of great significance to understand the regulation of temperature and nitrogen on floral initiation. This experiment selected representative semi-winter and spring rapeseed varieties to study the leaf’s soluble sugar and protein concentration under different nitrogen supplies and the transcriptome reactions to vernalization for spring and semi-winter varieties rapeseed in transition to floral initiation. The results showed that the soluble sugar content and carbon-to-nitrogen ratio changed due to the different growth processes and nitrogen application rates. The increase of the sugar content to a peak could be regarded as the signal to start floral initiation. Reducing the nitrogen application rate increased the peak of sugar content, but the effect on the appearance time of the peak was not obvious. Under normal (20–25 °C) and low temperatures (10–15 °C), the floral initiation time of spring variety “1358” showed no difference, nor did expression of hub gene SOC1, which is involved in the flowering regulation network. The semi-winter variety “Zhongshuang No. 11” did not commence floral initiation under normal temperature because of the lacking of vernalization requirement. Low temperature promoted the floral initiation of semi-winter variety mainly through the FLC, SOC1, and LFY signaling pathways, and the gibberellin also played a positive factor in this process. In essence, the present study provides valuable information on the gene expression differences of vernalization-driven floral transition for spring and semi-winter ecotypes of rapeseed when the photoperiod is not an unlimited factor.

Structural Polymorphisms of Chromosome 3Am Containing Lr63 Leaf Rust Resistance Loci Reflect the Geographical Distribution of Triticum monococcum L. and Related Diploid Wheats

Wheat is one of the world’s crucial staple food crops. In turn, einkorn wheat (Triticum monococcum L.) is considered a wild relative of wheat (Triticum aestivum L.) and can be used as a source of agronomically important genes for breeding purposes. Cultivated T. monococcum subsp. monococcum originated from T. monococcum subsp. aegilopoides (syn. T. boeticum). For the better utilization of valuable genes from these species, it is crucial to discern the genetic diversity at their cytological and molecular levels. Here, we used a fluorescence in situ hybridization toolbox and molecular markers linked to the leaf rust resistance gene Lr63 (located on the short arm of the 3Am chromosome—3AmS) to track the polymorphisms between T. monococcum subsp. monococcum, T. boeticum and T. urartu (A-genome donor for hexaploid wheat) accessions, which were collected in different regions of Europe, Asia, and Africa. We distinguished three groups of accessions based on polymorphisms of cytomolecular and leaf rust resistance gene Lr63 markers. We observed that the cultivated forms of T. monococcum revealed additional marker signals, which are characteristic for genomic alternations induced by the domestication process. Based on the structural analysis of the 3AmS chromosome arm, we concluded that the polymorphisms were induced by geographical dispersion and could be related to adaptation to local environmental conditions.

The Expression of Neogene TIGD3 that Derived from DNA Transposons in Colorectal Cancer Cell lines

DNA transposons are exposed to a molecular domestication process, which results in the formation of neogenes,which may play a role in human genetic instability. TIGD3 (Tigger-derived [TIGD] family of proteins) is one ofthese Neogene, and its role in the human genome is unknown.Aim: The expression of Neogene TIGD3 in colorectal cancer cell lines and its putative function in carcinogenesisare being investigated.Method: The protein expression of the TIGD3 gene was investigated using the western blot method in twelvecolorectal cancer cell lines (HCT116, SW48, LOVO, DLD1) that are microsatellite instable MSI, (SW480, SW620,HT29, LS123, COLO205, T84, SW403, SW1463) that are microsatellite stable MSS, and in healthy colon tissue as acontrol in our study.Results: The expression of the TIGD3 protein was found in all twelve colorectal cancer cell lines, with varyingdegrees of expression and numerous isoforms, which was not found in healthy colon tissue.Conclusion: There may be a link between colorectal cancer evolution or progression and TIGD3 gene expression.

Mutational load and deleterious mutations in goat genome from Kenya

Different domestication processes such as selection and effective population size are among other factors responsible for the accumulation of mutations in an animal. This study investigated the mutation load and accumulation of deleterious mutations in Kenyan goat populations using Single Nucleotide Polymorphism (SNP) data obtained from local (Galla = 12) and exotic (Saanen = 24, Alpine = 28, and Toggenburg = 30) goat genotypes. The SNP annotation was done on the ENSEMBLE goat (Capra hircus) using the Variant Effect Predictor (VEP). Sorting Intolerant from Tolerant (SIFT) was done on the annotated file using a score of > 0.01 to describe highly deleterious mutations. Biomart tool in the ENSEMBL goat C. hircus was used for Gene Ontology (GO) for the genes identified from highly deleterious mutations. The analysis disclosed no differences in mutation load among the studied genotypes. Overall, the synonymous mutations were in abundance compared to missense mutations, totaling 693 and 258 representing 1.01% and 0.37%, respectively. The calculated mutation load was similar (0.37) suggesting exposure of goats to similar domestication processes that are creating similar effects on the animal’s genome. Further analysis of the missense variants revealed 126 deleterious mutations and 132 tolerated mutations. A total of 111 genes were identified from the deleterious mutations and only 5 were among the highly deleterious mutations (SIFT score > 0.01) which include PROS1, EHBP1, LTN1, LRRN4, and FNDC3A. Gene Ontology describes these genes as responsible for different functions associated with animal reproduction, diseases, and memory. This study's results have confirmed the levels of mutation load and the presence of deleterious mutations in Kenyan goats. This can be used as a base to predict the future rate of mutation load to ensure better implementation of conservation programs to avoid an accumulation of deleterious mutations.

Morphogenetic diversity of the selected hatchery populations of an Indian major carp (Labeo rohita, Hamilton, 1822) in the Mymensingh region of Bangladesh

Environmental changes due to the domestication of wild population in hatchery conditions often lead to morphogenetic alterations in fish. Therefore, this study aimed to determine the genetic purity, demographic history, and population structure of Labeo rohita collected from three hatcheries in Bangladesh using a geometric morphometric approach in conjunction with mtDNA cyt b gene sequences and microsatellite markers. The geometric morphometric analysis revealed significant variation in centroid size (body size) among the different populations of L. rohita. However, MANCOVA and subsequent ANCOVA models showed no significant variation in body shape (relative wraps, RWs) among those populations. Both DNA-based techniques amplified all genotypes and revealed a high degree of genetic diversity across all populations. Clustering analyses based on the Neighbour-Joining (NJ) phylogenetic approach found that the hatchery populations have indisputably diverged from the wild populations. The study of haplotype networks, neutrality testing, and mismatch distributions revealed a complex population expansion pattern involving genetic introgression resulting from human translocation. This tendency is exacerbated further by anthropogenic factors, resulting in the loss of various alleles from hatchery populations. The unevenness of pair-wise FST and the hierarchical analysis of molecular variance of population structure showed a distinct variation between wild and hatchery populations. This genetic loss occurs due to improper domestication processes of the hatchery populations. Ignorance of appropriate hatchery procedures may lead to adverse selection by using poor seed leading to stock deterioration in the hatchery population. This study could help to establish appropriate breeding strategies and provide essential information for the genetic improvement program of L. rohita.

Grey wolf genomic history reveals a dual ancestry of dogs

The grey wolf (Canis lupus) was the first species to give rise to a domestic population, and they remained widespread throughout the last Ice Age when many other large mammal species went extinct. Little is known, however, about the history and possible extinction of past wolf populations or when and where the wolf progenitors of the present-day dog lineage (Canis familiaris) lived1–8. Here we analysed 72 ancient wolf genomes spanning the last 100,000 years from Europe, Siberia and North America. We found that wolf populations were highly connected throughout the Late Pleistocene, with levels of differentiation an order of magnitude lower than they are today. This population connectivity allowed us to detect natural selection across the time series, including rapid fixation of mutations in the gene IFT88 40,000–30,000 years ago. We show that dogs are overall more closely related to ancient wolves from eastern Eurasia than to those from western Eurasia, suggesting a domestication process in the east. However, we also found that dogs in the Near East and Africa derive up to half of their ancestry from a distinct population related to modern southwest Eurasian wolves, reflecting either an independent domestication process or admixture from local wolves. None of the analysed ancient wolf genomes is a direct match for either of these dog ancestries, meaning that the exact progenitor populations remain to be located.

Adaptation and biocultural conservation of traditional agroforestry systems in the Tehuacán Valley: access to resources and livelihoods strategies

Traditional agroforestry systems (TAFS) are important areas for conserving biodiversity, ecosystems benefits and biocultural heritage, outstandingly local knowledge, management techniques, and domestication processes. These systems have adapted to environmental, social, technological, and cultural changes throughout history. However, contemporary drastic socio-environmental changes as climate variability, economic inequality, migration, among others, have caused a productive crisis, with several consequences as productive land abandonment, threaten the sustainability of TAFS and vulnerating livelihoods. In such context, the question arises of what kind of adaptations are needed to face these changes, and how access to water and land, should be managed to improve adaptation of TAFS? The study analyzes TAFS in the Tehuacán Valley, a region with high biological and cultural diversity and early signs of agriculture in Mexico, where TAFS have remained active until present. The study analyzes the capacity of TAFS to conserve biodiversity and sustain local livelihoods, despite socio-environmental threats. It is based on a political ecology approach, which proposes that socio-ecological systems degradation is linked to unequal access to land and natural resources. Looking for an integral study of adaptations of TAFS to socio-environmental changes, this study combines qualitative and historical research methodology with quantitative methods evaluating plant diversity and spatial analysis. The study findings show that differentiated access to resources, water, land, and forest, is a key factor that limits adaptation of TAFS, impacting livelihood strategies, changing management patterns, and constraining social capacities for coping with socio-environmental changes. TAFS have significantly higher species richness than forests but lower diversity. The main contribution of the study is the methodological approach looking for an integral analysis of natural resources management and biocultural conservation in agroecosystems, and the identification of the unequal access to resources, as a keystone to understand and act for improving adaptive strategies of TAFS to socio-environmental changes.

A stepwise route to domesticate rice by controlling seed shattering and panicle shape

Asian rice (Oryza sativa L.) is consumed by more than half of the world's population. Despite its global importance, the process of early rice domestication remains unclear. During domestication, wild rice (Oryza rufipogon Griff.) acquired non-seed-shattering behavior, allowing humans to increase grain yield. Previous studies argued that a reduction in seed shattering triggered by the sh4 mutation led to increased yield during rice domestication, but our experiments using wild introgression lines show that the domesticated sh4 allele alone is insufficient for shattering loss in O. rufipogon. The interruption of abscission layer formation requires both sh4 and qSH3 mutations, demonstrating that the selection of shattering loss in wild rice was not as simple as previously suggested. Here we identified a causal single-nucleotide polymorphism at qSH3 within the seed-shattering gene OsSh1, which is conserved in indica and japonica subspecies but absent in the circum-aus group of rice. Through harvest experiments, we further demonstrated that seed shattering alone did not significantly impact yield; rather, yield increases were observed with closed panicle formation controlled by SPR3 and further augmented by nonshattering, conferred by integration of sh4 and qSH3 alleles. Complementary manipulation of panicle shape and seed shattering results in a mechanically stable panicle structure. We propose a stepwise route for the earliest phase of rice domestication, wherein selection of visible SPR3-controlled closed panicle morphology was instrumental in the sequential recruitment of sh4 and qSH3, which together led to the loss of shattering.

Metabolomic Analysis Identifies Differences Between Wild and Domesticated Chili Pepper Fruits During Development (Capsicum annuum L.).

Capsicum spp. members are a rich source of specialized compounds due to their secondary metabolism. Some metabolic pathways have suffered modifications during the domestication process and improvement of agricultural traits. Here, we compared non-targeted LC–MS profiles from several areas: wild accessions (C. annuum L. var. glabriusculum), domesticated cultivars (C. annuum L.), and the F1 progeny of a domesticated, and a wild accession cross (in both directions) throughout seven stages of fruit development of chili pepper fruits. The main detected differences were in glycerophospholipid metabolism, flavone and flavonol biosynthesis, sphingolipid metabolism, and cutin biosynthesis. The domesticated group exhibited a higher abundance in 12′-apo-β-carotenal, among others capsorubin, and β-tocopherol. Palmitic acid and derivates, terpenoids, and quercitrin were prevalent in the wild accessions. F1 progeny showed a higher abundance of capsaicin, glycol stearate, and soyacerebroside I. This work supports evidence of the side-affectation of trait selection over the metabolism of chili pepper fruit development. Furthermore, it was also observed that there was a possible heterosis effect over the secondary metabolism in the F1 progeny.

The Organ Size and Morphological Change During the Domestication Process of Soybean.

Soybean is one of the most important legume crops that can provide the rich source of protein and oil for human beings and livestock. In the twenty-one century, the total production of soybean is seriously behind the needs of a growing world population. Cultivated soybean [Glycine max (L.) Merr.] was domesticated from wild soybean (G. soja Sieb. and Zucc.) with the significant morphology and organ size changes in China around 5,000 years ago, including twisted stems to erect stems, small seeds to large seeds. Then it was spread worldwide to become one of the most popular and important crops. The release of the reference soybean genome and omics data provides powerful tools for researchers and breeders to dissect the functional genes and apply the germplasm in their work. Here, we summarized the function genes related to yield traits and organ size in soybean, including stem growth habit, leaf size and shape, seed size and weight. In addition, we also summarized the selection of organ traits during soybean domestication. In the end, we also discussed the application of new technology including the gene editing on the basic research and breeding of soybean, and the challenges and research hotspots in the future.

The biocultural origins and dispersal of domestic chickens

Though chickens are the most numerous and ubiquitous domestic bird, their origins, the circumstances of their initial association with people, and the routes along which they dispersed across the world remain controversial. In order to establish a robust spatial and temporal framework for their origins and dispersal, we assessed archaeological occurrences and the domestic status of chickens from ∼600 sites in 89 countries by combining zoogeographic, morphological, osteometric, stratigraphic, contextual, iconographic, and textual data. Our results suggest that the first unambiguous domestic chicken bones are found at Neolithic Ban Non Wat in central Thailand dated to ∼1650 to 1250 BCE, and that chickens were not domesticated in the Indian Subcontinent. Chickens did not arrive in Central China, South Asia, or Mesopotamia until the late second millennium BCE, and in Ethiopia and Mediterranean Europe by ∼800 BCE. To investigate the circumstances of their initial domestication, we correlated the temporal spread of rice and millet cultivation with the first appearance of chickens within the range of red junglefowl species. Our results suggest that agricultural practices focused on the production and storage of cereal staples served to draw arboreal red junglefowl into the human niche. Thus, the arrival of rice agriculture may have first facilitated the initiation of the chicken domestication process, and then, following their integration within human communities, allowed for their dispersal across the globe.

Genome-Wide Identification of MDH Family Genes and Their Association with Salt Tolerance in Rice.

Malate dehydrogenase (MDH) is widely present in nature and regulates plant growth and development, as well as playing essential roles, especially in abiotic stress responses. Nevertheless, there is no comprehensive knowledge to date on MDH family members in rice. In this study, a total of 12 MDH members in rice were identified through genome-wide analysis and divided into three groups on the basis of their phylogenetic relationship and protein-conserved motifs. Evolutionary analysis showed that MDH proteins from rice, maize and wheat shared a close phylogenetic relationship, and the MDH family was conserved in the long-term process of domestication. We identified two segmental duplication events involving four genes, which could be the major force driving the expansion of the OsMDH family. The expression profile, cis-regulatory elements and qRT-PCR results of these genes revealed that a few OsMDH showed high tissue specificity, almost all of which had stress response elements in the promoter region, and ten MDH members were significantly induced by salt stress. Through gene-based association analysis, we found a significant correlation between salt tolerance at the seedling stage and the genetic variation of OsMDH8.1 and OsMDH12.1. Additionally, we found that the polymorphism in the promoter region of OsMDH8.1 might be related to the salt tolerance of rice. This study aimed to provide valuable information on the functional study of the rice MDH gene family related to salt stress response and revealed that OsMDH8.1 might be an important gene for the cultivar improvement of salt tolerance in rice.

Acclimatization of resorcinol results in microbial community dynamics and physicochemical characteristics of aerobic activated sludge

Several studies have demonstrated that the biodegradation of resorcinol as a major pollutant in domestic coal gas wastewater can vary greatly with respect to its physicochemical properties and the structure of the bacterial flora induced during acclimation. The primary objective of this study is to investigate the degradation of resorcinol by aerobic activated sludge at different stages of domestication, changes in the toxicity of the sludge and the resultant dynamic changes in the structure of the dominant bacterial population. During the 40-day domestication process, we show that as the influent resorcinol concentration increased from 0 mg/L to 50 mg/L to 100 mg/L, the effluent resorcinol concentration and chemical oxygen demand concentration tended to increase then decrease. Organic matter in the sludge, ranging in size from 5 to 10 kDa, gradually accumulated to a concentration of 94.8 ± 1.8 mg/L (0 mg/L), 141.3 ± 2.1 mg/L (50 mg/L) and 192.4 ± 2.3 mg/L (100 mg/L), which constitutes the majority of its organic toxicity. Moreover, our study reveals that the total number of major degrading enzyme genes in the sludge samples during the domestication and stabilization period were 27322 (0 mg/L), 46076 (50 mg/L) and 32472 (100 mg/L). The results of the experiment indicate that Methylotenera, Methylophilus, and Azoarcus gradually took on the role of dominant resorcinol degraders. This contribution is fruitful in explaining the shift in sludge organic toxicity as the result of changes in the enzyme system of microflora in the sludge, which then resulted in an increase in the population of functional bacteria with enzymes that can degrade resorcinol, and in turn, stimulated the increase of the microbial enzyme system.

Characterization and the Genetic Diversity in Pummelo Using Fruit Traits and SSR Markers

Pummelo is one of the basic citrus species of horticultural importance for human health and nutrition security. It has wide genetic diversity due to its breeding behavior during the domestication process. The present research was performed to study the fruits traits and characterization of the studied 21 pummelo genotypes with morphological, fruit quality parameters, and SSR markers. Principal component analysis (PCA) was done to get PC individual plot and clustering the genotypes in five main clusters based on 17 morphological traits. The highest number (08) of genotypes was grouped in cluster V and the lowest (01) in cluster III. Genotypes resided with the highest genetic distance in the individual biplots are promising for suitable parents. Again, molecular characterization or cluster analysis was performed with 5 SSR markers. The PIC values ranged from a low of 0.66 (CAC23) to a high of 0.8787 (TAA41) and averaged 0.78. TAA41 presented the second largest (47 bp) difference among allele size range and the largest (11) number of alleles with the highest gene diversity value (0.88). The average genetic distance among the 21 pummelo genotypes were 0.8362. The NJ cluster analysis led to the grouping of the pummelo genotypes in three major clusters (I, II, and III). The genotypes resided in the similar cluster should be avoided for pummelo improvement. The findings of this research would be useful to select desirable parents for future pummelo breeding program.

Development of the PARMS Markers of the Waxy Gene and Utilization in Discriminating Wild Accessions, and Cultivated Rice (Oryza sativa L.) with Different Eating and Cooking Quality

Amylose content (AC) is the major indicator of rice eating and cooking quality (ECQ). Its synthesis in rice endosperm is mainly regulated by the protein, granule-bound starch synthase 1, which is encoded by the waxy gene (Os06g0133000, LOC_Os06g04200). The diversity of AC is largely attributable to the allelic variation at the Wx locus and the development of effective and accurate functional molecular markers to target rice variant alleles is crucial in the breeding strategy. In the present study, we developed six pairs of penta-primer amplification refractory mutation system (PARMS) markers to distinguish between Wxlv, Wxa, Wxin, Wxb, Wxmp, and Wxop,hp. These markers were successfully used to screen the genotype of large assets of genetic resources including 98 wild accessions, 55 cultivars, and 22 parental lines. Our results showed that Wxb in a low AC type was predominant in Guangxi cultivated rice as a result of cultural preference, while Wxlv in the wild accessions. Moreover, our findings surprisingly revealed the presence of Wxb in wild accession, which is a new outcome that may contribute to understanding the origin, selection and domestication processes of rice. These functional markers could be effectively used in marker-assisted breeding to improve selection efficiency of cultivars with desired AC in the early generation.

Comparative and quantitative morphology of the pig and wild boar cerebellum for identifying possible effects of domestication

The domestic pig (Sus scrofa domesticus) stems from the Eurasian wild boar (Sus scrofa): this offers an appealing window to study microanatomical changes related to the process of domestication, the symbiotic relationship between human and animal. In this light, we quantitatively demonstrated significant microanatomical differences between pig and wild boar cerebella. Calbindin D-28, a calcium binding protein, was employed as immunohistochemical marker of the Purkinje cells. Our results showed that: (i) the foliation index, expressing the rate of cerebellar cortical folding, and the number of granular cells were not significantly different between pigs and wild boars; (ii) area of the granular layer and the molecular layer, and area of white matter were lower in pigs; (iii) the fraction area, grey matter/white matter, was higher in pigs; (iv) the Purkinje cell linear density and their soma area were higher in wild boars. Despite the morphological data alone are not sufficient to draw any final conclusions, our findings on Purkinje cells may represent good indicators of a reduction of the pig cerebellum motor and cognitive functions during the process wild boar-to-pig domestication.

The East Asian wild apples, Malus baccata (L.) Borkh and Malus hupehensis (Pamp.) Rehder., are additional contributors to the genomes of cultivated European and Chinese varieties.

The domestication process in long-lived plant perennials differs dramatically from that of annuals, with a huge amount of genetic exchange between crop and wild populations. Though apple is a major fruit crop grown worldwide, the contribution of wild apple species to the genetic makeup of the cultivated apple genome remains a topic of intense study. We used population genomics approaches to investigate the contributions of several wild apple species to European and Chinese rootstock and dessert genomes, with a focus on the extent of wild-crop gene flow. Population genetic structure inferences revealed that the East Asian wild apples, Malus baccata (L.) Borkh and M. hupehensis (Pamp.), form a single panmictic group, and that the European dessert and rootstock apples form a specific gene pool whereas the Chinese dessert and rootstock apples were a mixture of three wild gene pools, suggesting different evolutionary histories of European and Chinese apple varieties. Coalescent-based inferences and gene flow estimates indicated that M. baccata - M. hupehensis contributed to the genome of both European and Chinese cultivated apples through wild-to-crop introgressions, and not as an initial contributor as previously supposed. We also confirmed the contribution through wild-to-crop introgressions of Malus sylvestris Mill. to the cultivated apple genome. Apple tree domestication is therefore one example in woody perennials that involved gene flow from several wild species from multiple geographical areas. This study provides an example of a complex protracted process of domestication in long-lived plant perennials, and is a starting point for apple breeding programmes.

Changes in Neuropeptide Prohormone Genes among Cetartiodactyla Livestock and Wild Species Associated with Evolution and Domestication

The impact of evolution and domestication processes on the sequences of neuropeptide prohormone genes that participate in cell–cell signaling influences multiple biological process that involve neuropeptide signaling. This information is important to understand the physiological differences between Cetartiodactyla domesticated species such as cow, pig, and llama and wild species such as hippopotamus, giraffes, and whales. Systematic analysis of changes associated with evolutionary and domestication forces in neuropeptide prohormone protein sequences that are processed into neuropeptides was undertaken. The genomes from 118 Cetartiodactyla genomes representing 22 families were mined for 98 neuropeptide prohormone genes. Compared to other Cetartiodactyla suborders, Ruminantia preserved PYY2 and lost RLN1. Changes in GNRH2, IAPP, INSL6, POMC, PRLH, and TAC4 protein sequences could result in the loss of some bioactive neuropeptides in some families. An evolutionary model suggested that most neuropeptide prohormone genes disfavor sequence changes that incorporate large and hydrophobic amino acids. A compelling finding was that differences between domestic and wild species are associated with the molecular system underlying ‘fight or flight’ responses. Overall, the results demonstrate the importance of simultaneously comparing the neuropeptide prohormone gene complement from close and distant-related species. These findings broaden the foundation for empirical studies about the function of the neuropeptidome associated with health, behavior, and food production.

Domestication of Lima Bean (Phaseolus lunatus) Changes the Microbial Communities in the Rhizosphere.

Plants modulate the soil microbiota and select a specific microbial community in the rhizosphere. However, plant domestication reduces genetic diversity, changes plant physiology, and could have an impact on the associated microbiome assembly. Here, we used 16S rRNA gene sequencing to assess the microbial community in the bulk soil and rhizosphere of wild, semi-domesticated, and domesticated genotypes of lima bean (Phaseolus lunatus), to investigate the effect of plant domestication on microbial community assembly. In general, rhizosphere communities were more diverse than bulk soil, but no differences were found among genotypes. Our results showed that the microbial community's structure was different from wild and semi-domesticated as compared to domesticated genotypes. The community similarity decreased 57.67% from wild to domesticated genotypes. In general, the most abundant phyla were Actinobacteria (21.9%), Proteobacteria (20.7%), Acidobacteria (14%), and Firmicutes (9.7%). Comparing the different genotypes, the analysis showed that Firmicutes (Bacillus) was abundant in the rhizosphere of the wild genotypes, while Acidobacteria dominated semi-domesticated plants, and Proteobacteria (including rhizobia) was enriched in domesticated P. lunatus rhizosphere. The domestication process also affected the microbial community network, in which the complexity of connections decreased from wild to domesticated genotypes in the rhizosphere. Together, our work showed that the domestication of P. lunatus shaped rhizosphere microbial communities from taxonomic to a functional level, changing the abundance of specific microbial groups and decreasing the complexity of interactions among them.

Dog Faces Are Faster than Wolf Faces

Humans domesticated dogs with attention to the facial expressions that dogs produce, selecting for a suite of facial movement. Domestic dogs and humans are adept at accurately understanding one another’s facial expressions and movement around the eyes in dogs is highly valued by humans. This unique, mutual ability to accurately process facial expressions is part of the dog‐human bond. An accurate understanding of how dog and wolf faces differ from one another is fundamental to understanding the processes of animal domestication, evolution of the dog, and the origins of human behavior since the Upper Paleolithic. While we know that dogs have facial musculature that wolves do not regularly possess, our understanding of evolutionary muscle physiology between these two species is incomplete. The present study was designed to assess differential distribution of slow‐twitch (type I) and fast‐twitch (type II) myosin fibers in select facial muscles of dogs and wolves. We tested the hypothesis that dog facial muscle physiology would be more similar to humans than to wolves in terms of myosin fiber type distribution. We used samples from the orbicularis oris muscle (OOM) and the zygomaticus major muscle (ZM) from a range of domestic dog breeds (Canis familiaris) and gray wolves (Canis lupus) that were part of previous studies. Samples were processed for myosin immunohistochemistry (IHC) and we selected 3‐5 sections from each specimen stained for identification of each fiber type in both the OOM and ZM muscles. We created composite images of stained sections and assessed fiber type percentages using ImageJ. Percentage of fast‐twitch fibers in dog samples ranged from 66%‐95% and wolves averaged around 25%. Slow‐twitch fiber percentages in dogs averaged only 10% while wolves averaged 29%. The dog range of type II fibers mirrors the range found in human facial muscles, indicating that the domestication process in dogs also involved selection for rapid facial movement, similar to the movement seen in human faces.