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Ch. 21 - Genomic Analysis
Chapter 20, Problem 22

Homology can be defined as the presence of common structures because of shared ancestry. Homology can involve genes, proteins, or anatomical structures. As a result of 'descent with modification,' many homologous structures have adapted different purposes. Under what circumstances might one expect proteins of similar function to not share homology? Would you expect such proteins to be homologous at the level of DNA sequences?

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Understand the concept of homology: Homology refers to similarities due to shared ancestry, which can be observed in genes, proteins, or anatomical structures.
Consider the concept of convergent evolution: This is when different species develop similar traits independently, often due to similar environmental pressures, rather than shared ancestry.
Apply convergent evolution to proteins: Proteins with similar functions might not share homology if they evolved independently in different lineages to perform similar roles, a process known as convergent evolution.
Analyze DNA sequence homology: If proteins are not homologous due to convergent evolution, it is unlikely that their DNA sequences would be homologous, as the sequences would have evolved independently.
Conclude with the expectation: Proteins with similar functions that are not homologous likely arose through convergent evolution, and thus, their DNA sequences would not be expected to show homology.

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Key Concepts

Here are the essential concepts you must grasp in order to answer the question correctly.

Homology

Homology refers to the similarity in structures or sequences that arises from a common ancestor. In genetics, this can pertain to genes, proteins, or anatomical features that have evolved from a shared lineage. Understanding homology is crucial for studying evolutionary relationships and functional similarities among organisms.
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Convergent Evolution

Convergent evolution occurs when different species independently evolve similar traits or functions due to similar environmental pressures, rather than from a common ancestor. This can lead to proteins that perform similar functions but do not share a homologous relationship at the genetic level, as they arise from different evolutionary paths.
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Molecular Homology vs. Functional Homology

Molecular homology refers to the similarity in DNA, RNA, or protein sequences due to shared ancestry, while functional homology pertains to similarities in the roles or functions of these molecules. It is possible for proteins to exhibit functional homology without molecular homology, especially if they have evolved independently to perform similar tasks in different organisms.
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Functional Genomics
Related Practice
Textbook Question
Researchers have compared candidate loci in humans and rats in search of loci in the human genome that are likely to contribute to the constellation of factors leading to hypertension [Stoll, M., et al. (2000). Genome Res. 10:473–482]. Through this research, they identified 26 chromosomal regions that they consider likely to contain hypertension genes. How can comparative genomics aid in the identification of genes responsible for such a complex human disease? The researchers state that comparisons of rat and human candidate loci to those in the mouse may help validate their studies. Why might this be so?
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Textbook Question
Homology can be defined as the presence of common structures because of shared ancestry. Homology can involve genes, proteins, or anatomical structures. As a result of 'descent with modification,' many homologous structures have adapted different purposes. List three anatomical structures in vertebrates that are homologous but have different functions.
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Textbook Question
Homology can be defined as the presence of common structures because of shared ancestry. Homology can involve genes, proteins, or anatomical structures. As a result of 'descent with modification,' many homologous structures have adapted different purposes. Is it likely that homologous proteins from different species have the same or similar functions? Explain.
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Textbook Question

Yeager, M., et al. [(2007) Nature Genetics 39:645–649] and Sladek, R., et al. [(2007) Nature 445:881–885] have used single-nucleotide polymorphisms (SNPs) in genome-wide association studies (GWAS) to identify novel risk loci for prostate cancer and Type 2 diabetes, respectively. Each study suggests that disease-risk genes can be identified that significantly contribute to the disease state. Given your understanding of such complex diseases, what would you determine as reasonable factors to consider when interpreting the results of GWAS?

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Textbook Question
Comparisons between human and chimpanzee genomes indicate that a gene that may function as a wild-type or normal gene in one primate may function as a disease-causing gene in another [The Chimpanzee Sequencing and Analysis Consortium (2005). Nature 437:69–87]. For instance, the PPARG locus (regulator of adipocyte differentiation) is a wild-type allele in chimps but is clearly associated with Type 2 diabetes in humans. What factors might cause this apparent contradiction? Would you consider such apparent contradictions to be rare or common? What impact might such findings have on the use of comparative genomics to identify and design therapies for disease-causing genes in humans?
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Textbook Question

Dominguez et al. (2004) suggest that by studying genes that determine growth and tissue specification in the eye of Drosophila, much can be learned about human eye development.

What evidence suggests that genetic eye determinants in Drosophila are also found in humans? Include a discussion of orthologous genes in your answer.

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