Hominoid cytogenetics and evolution

Much of the literature on the chromosomes of the Hominoidea exists in virtual isolation from both evolutionary theory and physical anthropology. Several unjustified speculations about hominoid affinities in the literature of cytogenetics may be attributed to the effects of this isolation. In this paper, the literature of comparative hominoid cytogenetics is reviewed, and that on chromosomal band patterns and repetitive DNA distributions relative to current evolutionary theory is discussed. These data are critically analyzed and shown to be more consistent with an orthodox hominoid phylogeny than with heterodox phylogenies. Rates and modes of karyotypic evolution are also discussed in an attempt to begin to assimilate the study of hominoid chromosomes within the framework of physical anthropology.     

Hominoid dispersal patterns and human evolution

Recent advances in DNA and isotope analyses have allowed tentative reconstructions of dispersal strategies of Plio-Pleistocene hominins.(1,2) Comparing their findings to dispersal patterns of some extant apes and humans suggested groups of related males and unrelated females in Neandertals indicating patrilocality(2) and Pan-like male philopatry in australopiths.(1) Here we review the demographic, ethnographic, and genetic evidence of dispersal patterns in extant apes and humans and compare the results to the suggestions for Plio-Pleistocene hominins. We find that alternative dispersal patterns, for example among gorillas or gibbons, could explain the findings of related or natal males in a confined geographic area. Based on sexual size dimorphism, we speculate that gorillas might currently be the best model for reconstructing dispersal in robust australopiths. Given that the sexual size dimorphism in other australopiths is still hotly debated, the question of which hominoid model best matches their dispersal pattern must remain unanswered. Neandertal dispersal patterns have been compared to patrilocality of modern humans. However, the latter is related to the advent of food production. Consequently, hunter-gatherers exhibiting primarily multilocality appear to be the better comparison for Neandertals. Overall, human-like patrilocality and Pan-like male philopatry appear to be poor models for the reconstruction of dispersal patterns in Plio-Pleistocene hominins.     

Hominoid evolution as judged by fibrinopeptide structures

Summary The fibrinopeptides A and B from gorilla, organgutan and siamang have been characterized, thereby completing a study of all six extant hominoids. The gorilla peptides were identical with the corresponding fibrinopeptides previously reported for human and chimpanzee. The orangutan peptide A was also identical with the human-chimpanzee-gorilla type A, but its fibrinopeptide B had two amino acid differences. The siamang A peptide differed from the others in one of its sixteen residues, but its peptide B was identical with the orangutan B. A cladogram based on the fibrinopeptide sequences of all six hominoids indicates that five amino acid replacements and one deletion can account for the evolution of present day sequences. It was also possible to deduce the amino acid sequence of the fibrinopeptides of the common ancestor of Old World monkeys and hominoids.Abbreviations Used PITC phenylisothiocyanate - DNS dimethylaminonaphthalene sulfonyl- - PCA pyrrolidone carboxylic acid - ASP aspartic acid - ASN asparagine - THR threonine - SER serine - GLU glutamic acid - GLN glutamine - GLY glycine - ALA alanine - VAL valine, ILE isoleucine - LEU leucine - PHE phenylalanine Supported by grants from the National Science Foundation (GB 7332) and the National Institutes of Health (GM-17, 702 and HE-12, 759).     

Hominoid seminal protein evolution and ancestral mating behavior

Hominoid mating systems show extensive variation among species. The degree of sexual dimorphism in body size and canine size varies among primates in accordance with their mating system, as does the testes size and the consistency of ejaculated semen, in response to differing levels of sperm competition. To investigate patterns of evolution at hominoid seminal proteins and to make inferences regarding the mating systems of extinct taxa, we sequenced the entire coding region of the prostate-specific transglutaminase (TGM4) gene in human, chimpanzee, bonobo, western lowland gorilla, eastern lowland gorilla, orangutan, and siamang, including multiple humans, chimps, and gorillas. Partial DNA sequence of the coding regions was also obtained for one eastern lowland gorilla at the semenogelin genes (SEMG1 and SEMG2), which code for the predominant proteins in semen. Patterns of nucleotide variation and inferred protein sequence change were evaluated within and between species. Combining the present data with previous studies demonstrates a high rate of amino acid substitutions, and low intraspecific variation, at seminal proteins in Pan, presumably driven by strong sperm competition. Both gorilla species apparently possess nonfunctional TGM4, SEMG1, and SEMG2 genes, suggesting that gorillas have had low sperm competition, and therefore their current polygynous mating system, for a long time before their divergence. Similarly, orangutans show longstanding stasis at TGM4, which may be interpreted as evidence for an unchanging mating system for most of their evolution after their divergence from African apes. In contrast to the great apes, the data from humans could be interpreted as evidence of fluctuations between different mating systems or alternatively as a relaxed functional constraint in these proteins. It is our hope that this study is a first step toward developing a model to predict ancestral mating systems from extant molecular data to complement interpretations from the fossil record.     

Hominoid trichotomy: A molecular overview

The subject of this review is an issue that was hotly debated even before the emergence of molecular data into the field of primate systematics. It is an understatement to say that dissenting opinions exist as to whether the chimpanzee (Pan) or gorilla (Gorilla) is the closest relative of humans (Homo) or whether, in fact, a three-way split in an ancestral population resulted in three separate lineages that are evolutionarily equidistant. The purpose of this review is to introduce the novice to the problems and methodologies of molecular phylogenetic analysis and to summarize the studies that have applied this approach in attempting to resolve the human-African ape trichotomy. The intent is to present the contribution of each study to the resolution of higher primate relationships.     

Longgupo Hominoid Mandible Belongs to Ape

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Developmental Aspects of Sexual Dimorphism in Hominoid Canines

We examined the histology of canine teeth in extant hominoids and provided a comparative database on several aspects of canine development. The resultant data augment the known pattern of differences in aspects of tooth crown formation among great apes and more importantly, enable us to determine the underlying developmental mechanisms responsible for canine dimorphism in them. We sectioned and analyzed a large sample (n = 108) of reliably-sexed great ape mandibular canines according to standard histological techniques. Using information from long- and short-period incremental markings in teeth, we recorded measurements of daily secretion rates, periodicity and linear enamel thickness for specimens of Pan troglodytes, Gorilla gorilla, Pongo pygmaeus and Homo sapiens. Modal values of periodicities in males and females, respectively, are: Pan 7/7; Gorilla 9/10; Pongo 10/10; and Homo 8/8. Secretion rates increase from the inner to the outer region of the enamel cap and decrease from the cuspal towards the cervical margin of the canine crown in all great ape species. Female hominoids tend to possess significantly thicker enamel than their male counterparts, which is almost certainly related to the presence of faster daily secretion rates near the enamel-dentine junction, especially in Gorilla and Pongo. Taken together, these results indicate that sexual differences in canine development are most apparent in the earlier stages of canine crown formation, while interspecific differences are most apparent in the outer crown region. When combined with results on the rate and duration of canine crown formation, the results provide essential background work for larger projects aimed at understanding the developmental basis of canine dimorphism in extant and extinct large-bodied hominoids and eventually in early hominins.     

Lineage-Specific Duplication and Loss of Pepsinogen Genes in Hominoid Evolution

Fourteen different pepsinogen-A cDNAs and one pepsinogen-C cDNA have been cloned from gastric mucosa of the orangutan, Pongo pygmaeus. Encoded pepsinogens A were classified into two groups, i.e., types A1 and A2, which are different in acidic character. The occurrence of 9 and 5 alleles of A1 and A2 genes (at least 5 and 3 loci), respectively was anticipated. Respective orthologous genes are present in the chimpanzee genome although their copy numbers are much smaller than those of the orangutan genes. Only A1 genes are present in the human probably due to the loss of the A2 gene. Molecular phylogenetic analyses showed that A1 and A2 genes diverged before the speciation of great hominoids. Further reduplications of respective genes occurred several times in the orangutan lineage, with much higher frequencies than those occurred in the chimpanzee and human lineages. The rates of non-synonymous substitutions were higher than those of synonymous ones in the lineage of A2 genes, implying the contribution of the positive selection on the encoded enzymes. Several sites of pepsin moieties were indeed found to be under positive selection, and most of them locate on the surface of the molecule, being involved in the conformational flexibility. Deduced from the known genomic structures of pepsinogen-A genes of primates and other mammals, the duplication/loss were frequent during their evolution. The extreme multiplication in the orangutan might be advantageous for digestion of herbaceous foods due to the increase in the level of enzymes in stomach and the diversification of enzyme specificity.     

云南元谋古猿生活时期自然环境的讨论

元谋古猿生活时期的自然环境是森林草原或疏林-草原,还是茂密的森林? 气候是凉干还是温暖潮湿? 本文试图从云南6个最具代表性中新世沉积盆地取得的丰富植物大化石和孢粉资料分析, 论证了中新世时期云南曾广泛分布热带或亚热带常绿阔叶林或落叶阔叶和常绿阔叶混交林。气候温暖湿润。至中新世最晚期, 落叶阔叶林和针叶林分布面积扩大, 气候变得凉干。与元谋古猿相邻的禄丰古猿生活时期及其前后正是经历了相同的环境变迁过程。由此推论元谋古猿生活时期的自然环境为茂密的森林, 气候温暖湿润。最后, 就《元谋古猿》专著对古猿生活时期的自然环境分析存在的问题进行了讨论。     

Mitogenome evolution in ladybirds: Potential association with dietary adaptation

Dietary shifts can alter the relative availability of different nutrients and are therefore associated with metabolic adaptation in animals. The Coccinellidae (ladybirds) exhibits three major types of feeding habits and provides a useful model to study the effects of dietary changes on the evolution of mitogenomes, which encode proteins directly involved in energy metabolism. Here, mitogenomes of three coccinellid species were newly sequenced. These data were combined with other ten previously sequenced coccinellid mitogenomes to explore the relationship between mitogenome evolution and diets. Our results indicate that mitogenomic data can be effectively used to resolve phylogenetic relationships of Coccinellidae. Strong codon usage bias in coccinellid mitogenomes was predominantly determined by nucleotide composition. The 13 mitochondrial protein‐coding genes (PCGs) globally evolved under negative constraints, with some PCGs showing a stronger purifying selection. Six PCGs (nad3, nad4L, and nad5 from Complex I; cox1 and cox3 from Complex IV; and atp6 from Complex V) displayed signs of positive selection. Of these, adaptive changes in cox3 were potentially associated with metabolic differences resulting from dietary shifts in Coccinellidae. Our results provide insights into the adaptive evolution of coccinellid mitogenomes in response to both dietary shifts and other life history traits.     

Hominoid visual brain structure volumes and the position of the lunate sulcus

It has been argued that changes in the relative sizes of visual system structures predated an increase in brain size and provide evidence of brain reorganization in hominins. However, data about the volume and anatomical limits of visual brain structures in the extant taxa phylogenetically closest to humans-the apes-remain scarce, thus complicating tests of hypotheses about evolutionary changes. Here, we analyze new volumetric data for the primary visual cortex and the lateral geniculate nucleus to determine whether or not the human brain departs from allometrically-expected patterns of brain organization. Primary visual cortex volumes were compared to lunate sulcus position in apes to investigate whether or not inferences about brain reorganization made from fossil hominin endocasts are reliable in this context. In contrast to previous studies, in which all species were relatively poorly sampled, the current study attempted to evaluate the degree of intraspecific variability by including numerous hominoid individuals (particularly Pan troglodytes and Homo sapiens). In addition, we present and compare volumetric data from three new hominoid species-Pan paniscus, Pongo pygmaeus, and Symphalangus syndactylus. These new data demonstrate that hominoid visual brain structure volumes vary more than previously appreciated. In addition, humans have relatively reduced primary visual cortex and lateral geniculate nucleus volumes as compared to allometric predictions from other hominoids. These results suggest that inferences about the position of the lunate sulcus on fossil endocasts may provide information about brain organization.     

Hominoid triosephosphate isomerase: Regulation of expression of the proliferation specific isozyme

Summary Three primary isoforms of the dimeric glycolytic enzyme, triosephosphate isomerase (TPI; EC 5.3.1.1), are detected in proliferating human cells. The electrophoretically separable isoforms result from the three possible combinations of constitutive subunits and subunits expressed only in proliferating cells. Only a single primary isoform is observed in quiescent cells. The two subunits, which differ by covalent modification (s), are products of the single structural locus for this enzyme. Expression of the proliferation specific subunit (TPI-2) is detected within 6–10 hr following mitogen stimulation of quiescent human cells, requires RNA synthesis and is inhibited by agents which inhibit interleukin 2 expression or function. Only the constitutive subunit (TPI-1) is detected in proliferating cells from nonhominoid primate species. A single class of TPI mRNA, which is increased > 10 fold following stimulation of quiescent cells, is detected on northern blot analysis and S1 nuclease digestion analysis of RNA from quiescent and proliferating human cells. It is similar in size to the TPI mRNA from proliferating cells of the African green monkey, a primate species not expressing TPI-2. Comparison of the structure of the TPI gene from rhesus monkey (nonexpressing species) to the gene from expressing species does not suggest a mechanism for generating TPI-2. Thus, the regulation of the expression of the hominoid restricted, proliferation specific subunit of TPI has been further defined, although the mechanism for generating TPI-2 remains elusive.     

Hominoid triosephosphate isomerase: Characterization of the major cell proliferation specific isozyme

Summary Proliferating cells derived from hominoid species contain electrophoretically separable forms of triosephosphate isomerase (TPI), including a constitutive isozyme and major and minor cell proliferation specific isozymes. Genetic studies have shown that the constitutive and inducible isozymes are products of the same structural gene. A procedure has been developed for the rapid isolation of the constitutive and major proliferation specific TPI isozymes from human lymphoblastoid B cells. [35^S]methionine labeled isozymes were purified through several steps of polyacrylamide gel electrophoresis in sufficient quantities for turnover studies and preliminary structural analysis. The intact isozymes were subjected to 23 steps of automated Edman degradation; both preparations yield a [³⁵S] PTH-methionine only at cycle 14, as expected if the protein is TPI. Neither isozyme contains an blocked NH₂-terminus and length heterogenity at the amino terminal does not exist. A comparison of the two purified isozymes on 2-D PAGE confirms that the constitutive isozyme consists of only type 1 subunits while the major proliferation specific isozyme is composed of a type 1 subunit and a unique type 2 subunit. The type 1 and type 2 subunits differ by at least four charge units under native, nondenaturing conditions of electrophoresis but do not differ in molecular mass. The difference between the type 1 and type 2 subunits is covalent, as the difference in isoelectric point between the two subunits is stable to both 2% SDS and 8 M urea. The expression of TPI-2 does not correlate with the existence of the labile asparagine residues. Turnover studies indicate that the level of each subunit is regulated by differences in rates of synthesis rather than degradation but a precursor-product relationship between the subunits was not observed. Thus the mechanism for synthesis of TPI-2 must operate either during mRNA processing or nascent peptide synthesis and then only in cells from hominoid species.