Bacterial injections into tumors show early promise for treating cancer @ Genome Editing with CRISPR-Cas9 & Jennifer Doudna (UC Berkeley / HHMI): Genome Engineering with CRISPR-Cas9 @ What you need to know about CRISPR | Ellen Jorgensen & Gene Silencing by microRNAs @ RNA interference (RNAi): by Nature Video @ DNA animations by wehi.tv for science-art exhibition & ´´In the fields of molecular biology and genetics, a genome is the genetic material of an organism. It consists of DNA (or RNA in RNA viruses). The genome includes both the genes (the coding regions) and the noncoding DNA,[1] as well as mitochondrial DNA[2] and chloroplast DNA. The study of the genome is called genomics.´´The term genome was created in 1920 by Hans Winkler,[3] professor of botany at the University of Hamburg, Germany. The Oxford Dictionary suggests the name is a blend of the words gene and chromosome.[4] However, see omics for a more thorough discussion. A few related -ome words already existed, such as biome and rhizome, forming a vocabulary into which genome fits systematically.[5]´´ @ Links and videos

Do the downloads!! Share!! The diffusion of very important information and knowledge is essential for the world progress always!! Thanks!!

  • – – > > Mestrado – Dissertation – Tabelas, Figuras e Gráficos – Tables, Figures and Graphics – ´´My´´ Dissertation #Innovation #Countries #Time #Researches #Reference #Graphics #Ages #Age #Mice #People #Person #Mouse #Genetics #PersonalizedMedicine #Diagnosis #Prognosis #Treatment #Disease #UnknownDiseases #Future #VeryEfficientDrugs #VeryEfficientVaccines #VeryEfficientTherapeuticalSubstances #Tests #Laboratories #Investments #Details #HumanLongevity #DNA #Cell #Memory #Physiology #Nanomedicine #Nanotechnology #Biochemistry #NewMedicalDevices #GeneticEngineering #Internet #History #Science #World

Pathol Res Pract. 2012 Jul 15;208(7):377-81. doi: 10.1016/j.prp.2012.04.006. Epub 2012 Jun 8.

The influence of physical activity in the progression of experimental lung cancer in mice

Renato Batista Paceli 1Rodrigo Nunes CalCarlos Henrique Ferreira dos SantosJosé Antonio CordeiroCassiano Merussi NeivaKazuo Kawano NagaminePatrícia Maluf Cury


Impact_Fator-wise_Top100Science_Journals

GRUPO_AF1 – GROUP AFA1 – Aerobic Physical Activity – Atividade Física Aeróbia – ´´My´´ Dissertation – Faculty of Medicine of Sao Jose do Rio Preto

GRUPO AFAN 1 – GROUP AFAN1 – Anaerobic Physical Activity – Atividade Física Anaeróbia – ´´My´´ Dissertation – Faculty of Medicine of Sao Jose do Rio Preto

GRUPO_AF2 – GROUP AFA2 – Aerobic Physical Activity – Atividade Física Aeróbia – ´´My´´ Dissertation – Faculty of Medicine of Sao Jose do Rio Preto

GRUPO AFAN 2 – GROUP AFAN 2 – Anaerobic Physical Activity – Atividade Física Anaeróbia – ´´My´´ Dissertation – Faculty of Medicine of Sao Jose do Rio Preto

Slides – mestrado – ´´My´´ Dissertation – Faculty of Medicine of Sao Jose do Rio Preto

CARCINÓGENO DMBA EM MODELOS EXPERIMENTAIS

DMBA CARCINOGEN IN EXPERIMENTAL MODELS

Avaliação da influência da atividade física aeróbia e anaeróbia na progressão do câncer de pulmão experimental – Summary – Resumo – ´´My´´ Dissertation – Faculty of Medicine of Sao Jose do Rio Preto

https://pubmed.ncbi.nlm.nih.gov/22683274/

Abstract

Lung cancer is one of the most incident neoplasms in the world, representing the main cause of mortality for cancer. Many epidemiologic studies have suggested that physical activity may reduce the risk of lung cancer, other works evaluate the effectiveness of the use of the physical activity in the suppression, remission and reduction of the recurrence of tumors. The aim of this study was to evaluate the effects of aerobic and anaerobic physical activity in the development and the progression of lung cancer. Lung tumors were induced with a dose of 3mg of urethane/kg, in 67 male Balb – C type mice, divided in three groups: group 1_24 mice treated with urethane and without physical activity; group 2_25 mice with urethane and subjected to aerobic swimming free exercise; group 3_18 mice with urethane, subjected to anaerobic swimming exercise with gradual loading 5-20% of body weight. All the animals were sacrificed after 20 weeks, and lung lesions were analyzed. The median number of lesions (nodules and hyperplasia) was 3.0 for group 1, 2.0 for group 2 and 1.5-3 (p=0.052). When comparing only the presence or absence of lesion, there was a decrease in the number of lesions in group 3 as compared with group 1 (p=0.03) but not in relation to group 2. There were no metastases or other changes in other organs. The anaerobic physical activity, but not aerobic, diminishes the incidence of experimental lung tumors.

´´We propose to change the default P-value threshold for statistical significance from 0.05 to 0.005 for claims of new discoveries.´´ https://www.nature.com/articles/s41562-017-0189-z Published:  Daniel J. Benjamin, James O. Berger, […]Valen E. Johnson Nature Human Behaviour volume 2, pages6–10 (2018)

Um mundo além de p < 0,05 « Sandra Merlo – Fonoaudiologia da Fluência

´´My´´ Monografia – Monograph – Induction of benznidazole resistance in human Trypanosoma cruzi isolates – Indução de resistência ao benzonidazol em isolados humanos de Trypanosoma cruzi – UFTM – Federal University of Triangulo Mineiro – Uberaba 

Avaliação da influência da atividade física aeróbia e anaeróbia na progressão do câncer de pulmão experimental – Summary – Resumo

Article – ´´My´´ dissertation – Faculty of Medicine of Sao Jose do Rio Preto

Feedback positivo de pessoas sobre minha dissertação pelo Messenger – Facebook. Positive feedback of people about my dissertation, blog and YouTube channel by Facebook – Messenger. Year – Ano: 2018

LISTA DE NOMES DE PESSOAS QUE ME DERAM FEEDBACK POSITIVO SOBRE A LISTA DE EMAILS QUE FIZ EM 2015 (PROJETO) – PEOPLE´S NAMES (POSITIVE FEEDBACK ABOUT THE EMAIL LIST I DID IN 2015) – E-MAIL LIST – LISTA DE E-MAILS – PROJECT – PESQUISA -RESEARCH

My suggestion of a very important Project…

Apostila – Pubmed

A Psicossomática Psicanalítica – Faculty of Medicine of Sao Jose do Rio Preto

ÁCIDO HIALURÔNICO – HIALURONIC ACID – Faculty of Medicine of Sao Jose do Rio Preto

Slides – Mestrado final – ´´My´´ dissertation – Faculty of Medicine of Sao Jose do Rio Preto

Avaliação da influência da atividade física aeróbia e anaeróbia na progressão do câncer de pulmão experimental – Summary – Resumo

O Homem como Sujeito da Realidade da Saúde – Redação – Faculty of Medicine of Sao Jose do Rio Preto

Aula_Resultados – Results – FAMERP – Faculty of Medicine of Sao Jose do Rio Preto

As credenciais da ciência – The credentials of Science – Faculty of Medicine of Sao Jose do Rio Preto BaixarFrases que digitei – Phrases I typed

Frases que digitei – Tecnologia – Informations about blog I did

Keynote-The-Future-of-Space-Exploration(1)

2019-01-hormone-alzheimer(1)

mojap-02-00034

ajpheart.00349.2013

aging – animal models

Nanomedicine an evolving research (Opinion article I typed)

journal-of-nanomedicine–nanotechnology-flyer

Will you embrace AI fast enough

MICROBIOLOGIA – MICROBIOLOGY – Faculty of Medicine of Sao Jose do Rio Preto

Genes e Epilepsia – Genes and epilepsy – Faculty of Medicine of Sao Jose do Rio Preto

Dr.A.M.S

Flav_R03

BIOGRAFIA – BIOGRAPH – DR. DOMINGO MARCOLINO BRAILE

p-Value – Valor de p

european-respiratory-society

redefine-statistical-significance

https://en.wikipedia.org/wiki/Genome

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The unusual strategy of injecting live bacteria into tumors may be helping some cancer patients, according to a small clinical trial. ISTOCK.COM/BRIANAJACKSON

Bacterial injections into tumors show early promise for treating cancer

By Jennifer Couzin-FrankelOct. 1, 2018 , 5:10 PM

NEW YORK CITY—“Live bacteria” and “cancer treatment” may not sound like a promising match, but certain microbes seem able to stall tumor growth when injected into the tumors, according to data presented here on 30 September at the Fourth International Cancer Immunotherapy Conference. The injections appear to activate an immune response that also targets the tumor. There are still questions about the safety of the approach. But given how many patients develop resistance or don’t respond to current cancer treatments, bacterial injections have generated enough interest that they’re part of a new clinical trial combining bacteria with an established immune therapy.

The research carries echoes of a more-than-a-century-old experiment. In the 1890s, oncologist William Coley began to inject cancer patients who had inoperable tumors with a mixture of killed bacteria. Coley reported success with the approach and “Coley’s toxins” were sold as a cancer therapy in the United States even into the 1960s. But other doctors questioned Coley’s results, and the treatment was overtaken by chemotherapy and radiation, which became standard in cancer.

Four years ago, a large team of cancer scientists suggested bacterial injections might be a valid way to treat cancer after all. They published a paper in Science Translational Medicine describing how in six out of 16 dogs with solid tumors, the masses shrank or even disappeared when injected with live copies of the bacterium Clostridium novyi. In that work, the research team first removed a toxin-producing gene from the live bacteria. Encouraged by how the dogs fared, the group also treated a 53-year-old woman with leiomyosarcoma, a form of cancer that begins in smooth muscles. Her tumor shrank as well, though she later sought other treatment for the cancer.

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That patient is now the first of many. In additional clinical work led by medical oncologist Filip Janku at the University of Texas MD Anderson Cancer Center in Houston, who was part of the scientific team 4 years earlier, 23 more patients with advanced sarcoma or other solid tumors ranging from breast cancer to melanoma got a single injection into their tumor of anywhere from 10,000 to 3 million Clostridium spores, a dormant form of the bacteria. The research team was surprised and excited by the bacteria’s antitumor effects. Nineteen patients, including that first woman, saw their cancers stabilize, which meant their tumors didn’t continue to grow after treatment. Even though the injections were local, the bacteria also seemed to sometimes stabilize and reduce tumor growth elsewhere in the body as seen on imaging, Janku says.

An inflammatory response to spores may generate the key anticancer immune action, he and his colleagues speculate. In 11 of the patients, the researchers saw evidence—fever, pain, and swelling at the injection sites—that the spores had germinated, the process by which the dormant bacteria resume active reproduction.

The strategy was so new that the scientists weren’t sure the dose would matter, especially because they hoped the spores would become active once inside the tumor. It turned out that how many spores were injected was a key safety consideration: The two patients who received the highest of six doses developed gangrene and sepsis, a life-threatening response to infection. A third patient, also in a higher dose group, got sepsis, too.

“We haven’t done a deep dive into the mechanism,” Janku says. The nonspore bacteria release various enzymes that can break down tumor cells, and just like any invader, they send the immune system into an inflammatory state that may target cancer masses as well. But the details remain mysterious.

Still, based on the stabilized tumor masses in so many patients, “you know it’s working,” says Dzana Dervovic, an immunologist at the Lunenfeld-Tanenbaum Research Institute in Toronto, Canada, who is especially interested in the fevers that tracked with cancer responses.

The trial was primarily meant to establish the immediate safety of the bacterial injections—though it offers hints of antitumor action it wasn’t designed to assess survival, or even how patients fared long-term. The patients, who were treated between 2013 and 2017, received just one injection (with the exception of one person who requested and got a second months later, which was not effective), and then went on to other treatments. To learn more, Janku opened another small trial earlier this year, with support from two companies, to test Clostridium in combination with a “checkpoint inhibitor” drug that helps unleash the immune system against tumors. Such drugs are an increasingly popular immunotherapy strategy, one that was today recognized with a Nobel Prize.Posted in: 

doi:10.1126/science.aav5929

Jennifer Couzin-Frankel

Jennifer Couzin-Frankel

Staff Writer

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Genome

From Wikipedia, the free encyclopediaJump to navigationJump to searchFor a non-technical introduction to the topic, see Introduction to genetics. For other uses, see Genome (disambiguation).

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An image of the 46 chromosomes making up the diploid genome of a human male. (The mitochondrial chromosome is not shown.)

In the fields of molecular biology and genetics, a genome is the genetic material of an organism. It consists of DNA (or RNA in RNA viruses). The genome includes both the genes (the coding regions) and the noncoding DNA,[1] as well as mitochondrial DNA[2] and chloroplast DNA. The study of the genome is called genomics.

Contents

Origin of term[edit]

The term genome was created in 1920 by Hans Winkler,[3] professor of botany at the University of Hamburg, Germany. The Oxford Dictionary suggests the name is a blend of the words gene and chromosome.[4] However, see omics for a more thorough discussion. A few related -ome words already existed, such as biome and rhizome, forming a vocabulary into which genome fits systematically.[5]

Sequencing and mapping[edit]

Further information: Genome project

A genome sequence is the complete list of the nucleotides (A, C, G, and T for DNA genomes) that make up all the chromosomes of an individual or a species. Within a species, the vast majority of nucleotides are identical between individuals, but sequencing multiple individuals is necessary to understand the genetic diversity.Part of DNA sequence – prototypification of complete genome of virus

In 1976, Walter Fiers at the University of Ghent (Belgium) was the first to establish the complete nucleotide sequence of a viral RNA-genome (Bacteriophage MS2). The next year, Fred Sanger completed the first DNA-genome sequence: Phage Φ-X174, of 5386 base pairs.[6] The first complete genome sequences among all three domains of life were released within a short period during the mid-1990s: The first bacterial genome to be sequenced was that of Haemophilus influenzae, completed by a team at The Institute for Genomic Research in 1995. A few months later, the first eukaryotic genome was completed, with sequences of the 16 chromosomes of budding yeast Saccharomyces cerevisiae published as the result of a European-led effort begun in the mid-1980s. The first genome sequence for an archaeonMethanococcus jannaschii, was completed in 1996, again by The Institute for Genomic Research.

The development of new technologies has made genome sequencing dramatically cheaper and easier, and the number of complete genome sequences is growing rapidly. The US National Institutes of Health maintains one of several comprehensive databases of genomic information.[7] Among the thousands of completed genome sequencing projects include those for rice, a mouse, the plant Arabidopsis thaliana, the puffer fish, and the bacteria E. coli. In December 2013, scientists first sequenced the entire genome of a Neanderthal, an extinct species of humans. The genome was extracted from the toe bone of a 130,000-year-old Neanderthal found in a Siberian cave.[8][9]

New sequencing technologies, such as massive parallel sequencing have also opened up the prospect of personal genome sequencing as a diagnostic tool, as pioneered by Manteia Predictive Medicine. A major step toward that goal was the completion in 2007 of the full genome of James D. Watson, one of the co-discoverers of the structure of DNA.[10]

Whereas a genome sequence lists the order of every DNA base in a genome, a genome map identifies the landmarks. A genome map is less detailed than a genome sequence and aids in navigating around the genome. The Human Genome Project was organized to map and to sequence the human genome. A fundamental step in the project was the release of a detailed genomic map by Jean Weissenbach and his team at the Genoscope in Paris.[11][12]

Reference genome sequences and maps continue to be updated, removing errors and clarifying regions of high allelic complexity.[13] The decreasing cost of genomic mapping has permitted genealogical sites to offer it as a service,[14] to the extent that one may submit one’s genome to crowdsourced scientific endeavours such as DNA.LAND at the New York Genome Center,[15] an example both of the economies of scale and of citizen science.[16]

Viral genomes[edit]

Viral genomes can be composed of either RNA or DNA. The genomes of RNA viruses can be either single-stranded or double-stranded RNA, and may contain one or more separate RNA molecules. DNA viruses can have either single-stranded or double-stranded genomes. Most DNA virus genomes are composed of a single, linear molecule of DNA, but some are made up of a circular DNA molecule.[17]

Prokaryotic genomes[edit]

Prokaryotes and eukaryotes have DNA genomes. Archaea have a single circular chromosome.[18] Most bacteria also have a single circular chromosome; however, some bacterial species have linear chromosomes[19] or multiple chromosomes.[20] If the DNA is replicated faster than the bacterial cells divide, multiple copies of the chromosome can be present in a single cell, and if the cells divide faster than the DNA can be replicated, multiple replication of the chromosome is initiated before the division occurs, allowing daughter cells to inherit complete genomes and already partially replicated chromosomes. Most prokaryotes have very little repetitive DNA in their genomes.[21] However, some symbiotic bacteria (e.g. Serratia symbiotica) have reduced genomes and a high fraction of pseudogenes: only ~40% of their DNA encodes proteins.[22][23]

Some bacteria have auxiliary genetic material, also part of their genome, which is carried in plasmids. For this, the word genome should not be used as a synonym of chromosome.

Eukaryotic genomes[edit]

Eukaryotic genomes are composed of one or more linear DNA chromosomes. The number of chromosomes varies widely from Jack jumper ants and an asexual nemotode,[24] which each have only one pair, to a fern species that has 720 pairs.[25] A typical human cell has two copies of each of 22 autosomes, one inherited from each parent, plus two sex chromosomes, making it diploid. Gametes, such as ova, sperm, spores, and pollen, are haploid, meaning they carry only one copy of each chromosome.

In addition to the chromosomes in the nucleus, organelles such as the chloroplasts and mitochondria have their own DNA. Mitochondria are sometimes said to have their own genome often referred to as the “mitochondrial genome“. The DNA found within the chloroplast may be referred to as the “plastome“. Like the bacteria they originated from, mitochondria and chloroplasts have a circular chromosome.

Unlike prokaryotes, eukaryotes have exon-intron organization of protein coding genes and variable amounts of repetitive DNA. In mammals and plants, the majority of the genome is composed of repetitive DNA.[26]

Coding sequences[edit]

DNA sequences that carry the instructions to make proteins are coding sequences. The proportion of the genome occupied by coding sequences varies widely. A larger genome does not necessarily contain more genes, and the proportion of non-repetitive DNA decreases along with increasing genome size in complex eukaryotes.[26]

Simple eukaryotes such as C. elegans and fruit fly, have more non-repetitive DNA than repetitive DNA,[26][27] while the genomes of more complex eukaryotes tend to be composed largely of repetitive DNA. In some plants and amphibians, the proportion of repetitive DNA is more than 80%.[26] Similarly, only 2% of the human genome codes for proteins.Composition of the human genome

Noncoding sequences[edit]

Noncoding sequences include introns, sequences for non-coding RNAs, regulatory regions, and repetitive DNA. Noncoding sequences make up 98% of the human genome. There are two categories of repetitive DNA in the genome: tandem repeats and interspersed repeats.[28]

Tandem repeats[edit]

Short, non-coding sequences that are repeated head-to-tail are called tandem repeats. Microsatellites consisting of 2-5 basepair repeats, while minisatellite repeats are 30-35 bp. Tandem repeats make up about 4% of the human genome and 9% of the fruit fly genome.[29] Tandem repeats can be functional. For example, telomeres are composed of the tandem repeat TTAGGG in mammals, and they play an important role in protecting the ends of the chromosome.

In other cases, expansions in the number of tandem repeats in exons or introns can cause disease.[30] For example, the human gene huntingtin typically contains 6–29 tandem repeats of the nucleotides CAG (encoding a polyglutamine tract). An expansion to over 36 repeats results in Huntington’s disease, a neurodegenerative disease. Twenty human disorders are known to result from similar tandem repeat expansions in various genes. The mechanism by which proteins with expanded polygulatamine tracts cause death of neurons is not fully understood. One possibility is that the proteins fail to fold properly and avoid degradation, instead accumulating in aggregates that also sequester important transcription factors, thereby altering gene expression.[30]

Tandem repeats are usually caused by slippage during replication, unequal crossing-over and gene conversion.[31]

Transposable elements[edit]

Transposable elements (TEs) are sequences of DNA with a defined structure that are able to change their location in the genome.[29][21][32] TEs are categorized as either class I TEs, which replicate by a copy-and-paste mechanism, or class II TEs, which can be excised from the genome and inserted at a new location.

The movement of TEs is a driving force of genome evolution in eukaryotes because their insertion can disrupt gene functions, homologous recombination between TEs can produce duplications, and TE can shuffle exons and regulatory sequences to new locations.[33]

Retrotransposons[edit]

Retrotransposons can be transcribed into RNA, which are then duplicated at another site into the genome.[34] Retrotransposons can be divided into Long terminal repeats (LTRs) and Non-Long Terminal Repeats (Non-LTR).[33]

Long terminal repeats (LTRs) are derived from ancient retroviral infections, so they encode proteins related to retroviral proteins including gag (structural proteins of the virus), pol (reverse transcriptase and integrase), pro (protease), and in some cases env (envelope) genes.[32] These genes are flanked by long repeats at both 5′ and 3′ ends. It has been reported that LTRs consist of the largest fraction in most plant genome and might account for the huge variation in genome size.[35]

Non-long terminal repeats (Non-LTRs) are classified as long interspersed elements (LINEs), short interspersed elements (SINEs), and Penelope-like elements. In Dictyostelium discoideum, there is another DIRS-like elements belong to Non-LTRs. Non-LTRs are widely spread in eukaryotic genomes.[36]

Long interspersed elements (LINEs) encode genes for reverse transcriptase and endonuclease, making them autonomous transposable elements. The human genome has around 500,000 LINEs, taking around 17% of the genome.[37]

Short interspersed elements (SINEs) are usually less than 500 base pairs and are non-autonomous, so they rely on the proteins encoded by LINEs for transposition.[38] The Alu element is the most common SINE found in primates. It is about 350 base pairs and occupies about 11% of the human genome with around 1,500,000 copies.[33]

DNA transposons[edit]

DNA transposons encode a transposase enzyme between inverted terminal repeats. When expressed, the transposase recognizes the terminal inverted repeats that flank the transposon and catalyzes its excision and reinsertion in a new site.[29] This cut-and-paste mechanism typically reinserts transposons near their original location (within 100kb).[33] DNA transposons are found in bacteria and make up 3% of the human genome and 12% of the genome of the roundworm C. elegans.[33]

Genome size[edit]

Log-log plot of the total number of annotated proteins in genomes submitted to GenBank as a function of genome size.

Genome size is the total number of DNA base pairs in one copy of a haploid genome. In humans, the nuclear genome comprises approximately 3.2 billion nucleotides of DNA, divided into 24 linear molecules, the shortest 50 000 000 nucleotides in length and the longest 260 000 000 nucleotides, each contained in a different chromosome.[39] The genome size is positively correlated with the morphological complexity among prokaryotes and lower eukaryotes; however, after mollusks and all the other higher eukaryotes above, this correlation is no longer effective.[26][40] This phenomenon also indicates the mighty influence coming from repetitive DNA on the genomes.

Since genomes are very complex, one research strategy is to reduce the number of genes in a genome to the bare minimum and still have the organism in question survive. There is experimental work being done on minimal genomes for single cell organisms as well as minimal genomes for multi-cellular organisms (see Developmental biology). The work is both in vivo and in silico.[41][42]

Here is a table of some significant or representative genomes. See #See also for lists of sequenced genomes.

Organism typeOrganismGenome size
(base pairs)
Approx. no. of genesNote
VirusPorcine circovirus type 11,7591.8kbSmallest viruses replicating autonomously in eukaryotic cells.[43]
VirusBacteriophage MS23,5693.5kbFirst sequenced RNA-genome[44]
VirusSV405,2245.2kb[45]
VirusPhage Φ-X1745,3865.4kbFirst sequenced DNA-genome[46]
VirusHIV9,7499.7kb[47]
VirusPhage λ48,50248.5kbOften used as a vector for the cloning of recombinant DNA.[48] [49] [50]
VirusMegavirus1,259,1971.3MbUntil 2013 the largest known viral genome.[51]
VirusPandoravirus salinus2,470,0002.47MbLargest known viral genome.[52]
BacteriumNasuia deltocephalinicola (strain NAS-ALF)112,091112kbSmallest non-viral genome.[53]
BacteriumCarsonella ruddii159,662160kb
BacteriumBuchnera aphidicola600,000600kb[54]
BacteriumWigglesworthia glossinidia700,000700Kb
BacteriumHaemophilus influenzae1,830,0001.8MbFirst genome of a living organism sequenced, July 1995[55]
BacteriumEscherichia coli4,600,0004.6Mb4288[56]
BacteriumSolibacter usitatus (strain Ellin 6076)9,970,00010Mb[57]
Bacterium – cyanobacteriumProchlorococcus spp. (1.7 Mb)1,700,0001.7Mb1884Smallest known cyanobacterium genome[58][59]
Bacterium – cyanobacteriumNostoc punctiforme9,000,0009Mb74327432 open reading frames[60]
AmoeboidPolychaos dubium (“Amoeba” dubia)670,000,000,000670GbLargest known genome.[61] (Disputed)[62]
Eukaryotic organelleHuman mitochondrion16,56916.6kb[63]
PlantGenlisea tuberosa61,000,00061MbSmallest recorded flowering plant genome, 2014.[64]
PlantArabidopsis thaliana135,000,000[65]135 Mb27,655[66]First plant genome sequenced, December 2000.[67]
PlantPopulus trichocarpa480,000,000480Mb73013First tree genome sequenced, September 2006[68]
PlantFritillaria assyriaca130,000,000,000130Gb
PlantParis japonica (Japanese-native, pale-petal)150,000,000,000150GbLargest plant genome known[69]
Plant – mossPhyscomitrella patens480,000,000480MbFirst genome of a bryophyte sequenced, January 2008.[70]
Fungus – yeastSaccharomyces cerevisiae12,100,00012.1Mb6294First eukaryotic genome sequenced, 1996[71]
FungusAspergillus nidulans30,000,00030Mb9541[72]
NematodePratylenchus coffeae20,000,00020Mb[73] Smallest animal genome known[74]
NematodeCaenorhabditis elegans100,300,000100Mb19000First multicellular animal genome sequenced, December 1998[75]
InsectDrosophila melanogaster (fruit fly)175,000,000175Mb13600Size variation based on strain (175-180Mb; standard y w strain is 175Mb)[76]
InsectApis mellifera (honey bee)236,000,000236Mb10157[77]
InsectBombyx mori (silk moth)432,000,000432Mb1462314,623 predicted genes[78]
InsectSolenopsis invicta (fire ant)480,000,000480Mb16569[79]
MammalMus musculus2,700,000,0002.7Gb20210[80]
MammalHomo sapiens3,289,000,0003.3Gb20000Homo sapiens estimated genome size 3.2 billion bp[81]Initial sequencing and analysis of the human genome[82]
MammalPan paniscus3,286,640,0003.3Gb20000Bonobo – estimated genome size 3.29 billion bp[83]
BirdGallus gallus1,043,000,0001.0Gb20000[84]
FishTetraodon nigroviridis (type of puffer fish)385,000,000390MbSmallest vertebrate genome known estimated to be 340 Mb[85][86] – 385 Mb.[87]
FishProtopterus aethiopicus (marbled lungfish)130,000,000,000130GbLargest vertebrate genome known

Genomic alterations[edit]

All the cells of an organism originate from a single cell, so they are expected to have identical genomes; however, in some cases, differences arise. Both the process of copying DNA during cell division and exposure to environmental mutagens can result in mutations in somatic cells. In some cases, such mutations lead to cancer because they cause cells to divide more quickly and invade surrounding tissues.[88] In certain lymphocytes in the human immune system, V(D)J recombination generates different genomic sequences such that each cell produces a unique antibody or T cell receptors.

During meiosis, diploid cells divide twice to produce haploid germ cells. During this process, recombination results in a reshuffling of the genetic material from homologous chromosomes so each gamete has a unique genome.

Genome-wide reprogramming[edit]

Genome-wide reprogramming in mouse primordial germ cells involves epigenetic imprint erasure leading to totipotency. Reprogramming is facilitated by active DNA demethylation, a process that entails the DNA base excision repair pathway.[89] This pathway is employed in the erasure of CpG methylation (5mC) in primordial germ cells. The erasure of 5mC occurs via its conversion to 5-hydroxymethylcytosine (5hmC) driven by high levels of the ten-eleven dioxygenase enzymes TET1 and TET2.[90]

Genome evolution[edit]

Genomes are more than the sum of an organism’s genes and have traits that may be measured and studied without reference to the details of any particular genes and their products. Researchers compare traits such as karyotype (chromosome number), genome size, gene order, codon usage bias, and GC-content to determine what mechanisms could have produced the great variety of genomes that exist today (for recent overviews, see Brown 2002; Saccone and Pesole 2003; Benfey and Protopapas 2004; Gibson and Muse 2004; Reese 2004; Gregory 2005).

Duplications play a major role in shaping the genome. Duplication may range from extension of short tandem repeats, to duplication of a cluster of genes, and all the way to duplication of entire chromosomes or even entire genomes. Such duplications are probably fundamental to the creation of genetic novelty.

Horizontal gene transfer is invoked to explain how there is often an extreme similarity between small portions of the genomes of two organisms that are otherwise very distantly related. Horizontal gene transfer seems to be common among many microbes. Also, eukaryotic cells seem to have experienced a transfer of some genetic material from their chloroplast and mitochondrial genomes to their nuclear chromosomes. Recent empirical data suggest an important role of viruses and sub-viral RNA-networks to represent a main driving role to generate genetic novelty and natural genome editing.

In fiction[edit]

Works of science fiction illustrate concerns about the availability of genome sequences.

Michael Crichton’s 1990 novel Jurassic Park and the subsequent film tell the story of a billionaire who creates a theme park of cloned dinosaurs on a remote island, with disastrous outcomes. A geneticist extracts dinosaur DNA from the blood of ancient mosquitoes and fills in the gaps with DNA from modern species to create several species of dinosaurs. A chaos theorist is asked to give his expert opinion on the safety of engineering an ecosystem with the dinosaurs, and he repeatedly warns that the outcomes of the project will be unpredictable and ultimately uncontrollable. These warnings about the perils of using genomic information are a major theme of the book.

The 1997 film Gattaca is set in a futurist society where genomes of children are engineered to contain the most ideal combination of their parents’ traits, and metrics such as risk of heart disease and predicted life expectancy are documented for each person based on their genome. People conceived outside of the eugenics program, known as “In-Valids” suffer discrimination and are relegated to menial occupations. The protagonist of the film is an In-Valid who works to defy the supposed genetic odds and achieve his dream of working as a space navigator. The film warns against a future where genomic information fuels prejudice and extreme class differences between those who can and can’t afford genetically engineered children.[91]

See also[edit]

References[edit]

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