Contrasting DNA sequence organisation patterns in sauropsidian genomes

Epplen, Jörg T.; Diedrich, U; Wagenmann, Margit; Schmidtke, Jörg; Engel, Wolfgang

doi:10.1007/bf00292208

Cited by 25 publications

(4 citation statements)

References 20 publications

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“…The long repeats generally consist of a mixture of long and short HR and MR elements (Crain et al ., 1976). Long period interspersion is characteristic of most species with small genomes (0.10–0.50 pg) (Samols & Swift, 1979), however, avian genomes are relatively large (1–2 pg) and exhibit long period interspersion (Epplen et al ., 1978, 1979). As genome size increases repetitive DNA generally occurs in a continuum between long and short period interspersion (Black & Rai, 1988).…”

Section: Introductionmentioning

confidence: 99%

Genome size and organization in the blacklegged tick, Ixodes scapularis and the Southern cattle tick, Boophilus microplus

Ullmann

Lima

Guerrero

et al. 2005

Insect Molecular Biology

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Genome sizes and the organization of repetitive DNA were determined in the hard ticks Ixodes scapularis and Boophilus microplus using reassociation kinetics. The I. scapularis genome contains ∼2.15 pg (2.1 × 103 Mbp) of DNA and consists of no foldback (FB), 27% highly repetitive (HR), 39% moderately repetitive (MR), and 34% unique DNA. The B. microplus genome contains 7.5 pg (7.1 × 103 Mbp) DNA, and consists of 0.82% FB, 31% HR, 38% MR, and 30% unique DNA. In both species, repetitive sequences occur in a mixture of long and short period interspersion but most (65–80%) of the DNA follows a pattern of short period interspersion. Genome size and organization in the three tick species so far examined are distinct from other arthropods in having a greater proportion of MR, a lower proportion of unique and HR DNA of very low sequence complexity.

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Section: Introductionmentioning

confidence: 99%

Genome size and organization in the blacklegged tick, Ixodes scapularis and the Southern cattle tick, Boophilus microplus

Ullmann

Lima

Guerrero

et al. 2005

Insect Molecular Biology

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“…In the late 1970s and early 80s reassociation kinetics studies were made on all major groups of sauropsids [Cortadas et al, 1979;Epplen et al, 1979;Olofsson and Bernardi, 1983]. In the early 80s Olmo's group made intensive studies of reassociation kinetics profiles and repetitive DNA contents of diverse sauropsid genomes [Olmo et al, 1981[Olmo et al, , 1985[Olmo et al, , 1988.…”

Section: Investigations In the Pre-genomics Era (From The 1960s To Thmentioning

confidence: 99%

Transposable Elements in Reptilian and Avian (Sauropsida) Genomes

Kordiš¹

2009

Cytogenet Genome Res

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Transposable elements (TEs) have profound effects on the structure, function and evolution of their host genomes. Our knowledge about these agents of genomic change in sauropsids, a sister group of mammals that includes all extant reptiles and birds, is still very limited. Invaluable information concerning the diversity, activity and repetitive landscapes in sauropsids has recently emerged from analyses of the draft genomes of chicken and Anolis and other preliminary reptilian genome sequencing projects. Avian and reptilian genomes differ significantly in the classes of TEs present, their fractional representation in the genome and by the level of TE activity. While lepidosaurian genomes contain many young, active TE families, the extant avian genomes have very few active TE lineages. Most reptilian genomes possess quite rich TE repertoires that differ considerably from those of birds and mammals, being more similar in diversity to that of lower vertebrates. The large amount of recently accumulated genome-wide data on TEs in diverse lineages of sauropsids has provided a remarkable opportunity to review current knowledge about TEs of sauropsids in their genomic context.

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“…Additional studies of C. parryi DNA showed these short repetitions belong to the very fast fractions and are mostly foldback sequences. A relatively homogeneous fraction of short repetitions (0.13-0.3 kb) with high reassociation rate (Cot < 10 3) was established by gel filtration of Sl-resistant DNA duplexes in the pigeon Columba livia (Epplen et al, 1979).…”

Section: Discussionmentioning

confidence: 99%

Genome analysis of ground squirrels of the genus Citellus (Rodentia, Sciuridae) II. DNA sequence organization

1983

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The organization of the DNA scquences in five species of Citeth~s (C. pygmaeus, C. J'ulvus, C. mq/or, C. parryi and C. undutatus) was determined from the reassociation kinetics of DNA fragments of various lengths and the size distribution of SI-nuclease-resistant duplexes of repetitive DNA. Only 15% of the genome of all the species studied consists of short unique and repeated sequences interspersed with a period less than 2 3 kb, whereas the major part of the genome is occupied by much more extensive sequences of two types, moderately long (3-15 kb) and very long (much more than 15 kb). On the basis of the number of moderately long single-copy sequences the species under study are divided into two groups, coinciding with their division into short-tailed and long-tailed ground squirrels: the short-tailed (C. pygmaeus, C. major and C. fulvus) possess far more such sequences (17 24%) than do the long-tailed ones (C. parrvi and C. undulatus) (1-7%). The same division is observed in the amount of very long single-copy sequences. The repeated DNA sequences of Citellus vary widely in size. i.e. from 70 up to some thousands of nucleotide pairs, sequences of more than 1200 nucleotide pairs being most common. In addition, part of the repetitions contain between 70 and 150 base pairs. About one-third of C. paro, i repeats (10% of the genome) are characterized by such very short sequences whereas their amount is much less in the other Citetlus species (1 4% of the genome).

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Contrasting DNA sequence organisation patterns in sauropsidian genomes

Cited by 25 publications

References 20 publications

Genome size and organization in the blacklegged tick, Ixodes scapularis and the Southern cattle tick, Boophilus microplus

Genome size and organization in the blacklegged tick, Ixodes scapularis and the Southern cattle tick, Boophilus microplus

Transposable Elements in Reptilian and Avian (Sauropsida) Genomes

Genome analysis of ground squirrels of the genus Citellus (Rodentia, Sciuridae) II. DNA sequence organization

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