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Cytogenetic and Sequence Analyses of Mitochondrial DNA Insertions in Nuclear Chromosomes of Maize.

Lough AN, Faries KM, Koo DH, Hussain A, Roark LM, Langewisch TL, Backes T, Kremling KA, Jiang J, Birchler JA, Newton KJ - G3 (Bethesda) (2015)

Bottom Line: Further examination of the similarly positioned 9L NUMT in two lines, B73 and M825, indicated that the large size of these sites is due to the presence of a majority of the mitochondrial genome; however, only portions of this NUMT (∼252 kb total) were found in the publically available B73 nuclear sequence for chromosome 9.Fiber-fluorescence in situ hybridization analysis estimated the size of the B73 9L NUMT to be ∼1.8 Mb and revealed that the NUMT is methylated.Two regions of mtDNA (2.4 kb and 3.3 kb) within the 9L NUMT are not present in the B73 mitochondrial NB genome; however, these 2.4-kb and 3.3-kb segments are present in other Zea mitochondrial genomes, including that of Zea mays ssp. parviglumis, a progenitor of domesticated maize.

View Article: PubMed Central - PubMed

Affiliation: Division of Biological Sciences, University of Missouri, Columbia, Missouri 65211.

No MeSH data available.


Variation in the 9L nuclear copies of mtDNA (NUMT) region in a subset of the maize diversity lines. Probes of mitochondrial DNA (mtDNA)-containing cosmids 5, 8, or 20 were hybridized to chromosomes from a diverse group of inbred lines. Cosmid 8 was used as a diagnostic tool for the large 9L NUMT (with a strong hybridization signal). Only chromosome 9 is shown. Sites of mtDNA hybridization are shown in white. Chromosomes were identified using a mix of three probes: Cent C, Knob, and 4-12-1 (shown in color). Chromosome on left: karyotyping probes and mtDNA probes. Chromosome on right: mtDNA probes only. White arrowheads indicate mtDNA insertions. Scale = 10 μm.
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fig3: Variation in the 9L nuclear copies of mtDNA (NUMT) region in a subset of the maize diversity lines. Probes of mitochondrial DNA (mtDNA)-containing cosmids 5, 8, or 20 were hybridized to chromosomes from a diverse group of inbred lines. Cosmid 8 was used as a diagnostic tool for the large 9L NUMT (with a strong hybridization signal). Only chromosome 9 is shown. Sites of mtDNA hybridization are shown in white. Chromosomes were identified using a mix of three probes: Cent C, Knob, and 4-12-1 (shown in color). Chromosome on left: karyotyping probes and mtDNA probes. Chromosome on right: mtDNA probes only. White arrowheads indicate mtDNA insertions. Scale = 10 μm.

Mentions: After observing that mtDNA present within cosmid probes 5 and 20 (Figure 2A) hybridized to a similar location on chromosome 9L in B73, B37, Mo17, and M825, the hybridization of these probes in a more diverse group of maize lines was examined (Figure 3). Seven lines were chosen for this investigation: Ky21, Oh7B, Oh43, HP301, P39, Ki11, and Tx303. Oh43 was previously analyzed using the 19-cosmid mix and found to contain a weak signal on chromosome 9L proximal (Lough et al. 2008).


Cytogenetic and Sequence Analyses of Mitochondrial DNA Insertions in Nuclear Chromosomes of Maize.

Lough AN, Faries KM, Koo DH, Hussain A, Roark LM, Langewisch TL, Backes T, Kremling KA, Jiang J, Birchler JA, Newton KJ - G3 (Bethesda) (2015)

Variation in the 9L nuclear copies of mtDNA (NUMT) region in a subset of the maize diversity lines. Probes of mitochondrial DNA (mtDNA)-containing cosmids 5, 8, or 20 were hybridized to chromosomes from a diverse group of inbred lines. Cosmid 8 was used as a diagnostic tool for the large 9L NUMT (with a strong hybridization signal). Only chromosome 9 is shown. Sites of mtDNA hybridization are shown in white. Chromosomes were identified using a mix of three probes: Cent C, Knob, and 4-12-1 (shown in color). Chromosome on left: karyotyping probes and mtDNA probes. Chromosome on right: mtDNA probes only. White arrowheads indicate mtDNA insertions. Scale = 10 μm.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4632043&req=5

fig3: Variation in the 9L nuclear copies of mtDNA (NUMT) region in a subset of the maize diversity lines. Probes of mitochondrial DNA (mtDNA)-containing cosmids 5, 8, or 20 were hybridized to chromosomes from a diverse group of inbred lines. Cosmid 8 was used as a diagnostic tool for the large 9L NUMT (with a strong hybridization signal). Only chromosome 9 is shown. Sites of mtDNA hybridization are shown in white. Chromosomes were identified using a mix of three probes: Cent C, Knob, and 4-12-1 (shown in color). Chromosome on left: karyotyping probes and mtDNA probes. Chromosome on right: mtDNA probes only. White arrowheads indicate mtDNA insertions. Scale = 10 μm.
Mentions: After observing that mtDNA present within cosmid probes 5 and 20 (Figure 2A) hybridized to a similar location on chromosome 9L in B73, B37, Mo17, and M825, the hybridization of these probes in a more diverse group of maize lines was examined (Figure 3). Seven lines were chosen for this investigation: Ky21, Oh7B, Oh43, HP301, P39, Ki11, and Tx303. Oh43 was previously analyzed using the 19-cosmid mix and found to contain a weak signal on chromosome 9L proximal (Lough et al. 2008).

Bottom Line: Further examination of the similarly positioned 9L NUMT in two lines, B73 and M825, indicated that the large size of these sites is due to the presence of a majority of the mitochondrial genome; however, only portions of this NUMT (∼252 kb total) were found in the publically available B73 nuclear sequence for chromosome 9.Fiber-fluorescence in situ hybridization analysis estimated the size of the B73 9L NUMT to be ∼1.8 Mb and revealed that the NUMT is methylated.Two regions of mtDNA (2.4 kb and 3.3 kb) within the 9L NUMT are not present in the B73 mitochondrial NB genome; however, these 2.4-kb and 3.3-kb segments are present in other Zea mitochondrial genomes, including that of Zea mays ssp. parviglumis, a progenitor of domesticated maize.

View Article: PubMed Central - PubMed

Affiliation: Division of Biological Sciences, University of Missouri, Columbia, Missouri 65211.

No MeSH data available.