Bong Bo Seo

Independent chromosomal localization of two different size 5S rDNA of Allium victorialis var. platyphyllum by sequential fluorescence in situ hybridization in accordance with sequence polymorphism

Abstract5S rRNA gene repeat units in a species are usually organized as either one relatively close size with numbers of intraspecific variations in NTS region or two different sizes with completely different sequence in NTS. Allium victorialis var. platyphyllum revealed two different size products of approximately 0.39 kb and 0.51 kb with highly conserved coding region of 120 bp. However, an extra sequences of approximately 120 bp between at 324 and 443 bp in long NTS region revealed, besides the remaining sequences of two NTS regions of short and long size were highly conserved giving the identity of 94.9%. To identify whether two different size 5S rDNA are occupied by a mixed state as random repeat or an independent group by each size in a particular locus, two rounds of FISH was sequentially performed using two probes of independent different size 5S rDNA and additional probe of only extra sequences of 120 bp in long NTS. Due to the highly conserved coding regions of both 5S rDNA, two different size 5S rDNA were detected in 3 loci in short arm of chromosome 6, however, extra sequences of long NTS was shown only in one locus within detected 5S rDNA from all examined chromosomes and interphase cells. This independent localization of two different size 5S rDNA suggests that 5S rDNA may be organized as a tandem repeat with random positions in a molecular level, but of cytogenetic view in chromosomes and interphase cells, they are organized as an independent group in a significant loci consisting of own size by the patterns of nucleotide variations.

Identification of a Molecular Marker and Chromosome Mapping of the 5S rRNA Gene inAllium sacculiferum

The 5S rRNA gene in higher eukaryotes is organized into repeated units of tandem array that comprise a conserved 120-bp coding region and a non-transcribed spacer (NTS) of variable length with nucleotides. The allotetraploid genome ofAllium sacculiferum consists of two unknown diploids (2n=32). Analyses have not been successful toward clarifying the origin of each genome due to their similar chromosome morphology and unmatched C-banding patterns. We PCR-amplified the coding and NTS regions of its 5S rRNA genes, cloned them into vectors, and determined their DNA sequences. Interestingly, the aligned sequences of the NTS clones could be divided into two distinctive groups based on the existence of a 3-bp CCT insertion/deletion at the beginning of the NTS region. This feature makes it an important genetic marker for distinguishing the origin of theA. sacculiferum chromosomes. Furthermore, by applying fluorescencein situ hybridization, we located the 5S rRNA gene loci on Chromosomes 5, 7, 8, 9, and 14; their distribution is unique toA. sacculiferum. These data support the idea that one set of this genome has originated from a CCT-containing close relative --A. deltoid-fistulosum -- and that the NTS region may be used as a molecular marker for identifying parental lines for the allotetraploidityof A. sacculiferum.

Ultrastructure of Leaves in C4 Cyperus iria and C3 Carex siderosticta

The ultrastructural aspects ofCyperus iria leaves showing the C4 syndrome and the typical C3 species,Carex siderosticta, in the Cyperaceae family were examined.C. iria exhibited the chlorocyperoid type, showing an unusual Kranz structure with vascular bundles completely surrounded by two bundle sheaths. The cellular components of the inner Kranz bundle sheath cells were similar to those found in the NADP-ME C4 subtype, having centrifugally arranged chloroplasts with greatly reduced grana and numerous starch grains. Their chloroplasts contained convoluted thyla-koids and a weakly-developed peripheral reticulum, although it was extensive mostly in mesophyll cell chloroplasts. The outer mestome bundle sheath layer was sclerenchymatous and generally devoid of organelles, but had unevenly thickened walls. Suberized lamellae were present on its cell walls, and they became polylamellate when traversed by plasmodesmata. Mesophyll cell chloroplasts showed well-stacked grana with small starch grains. InC. siderosticta, vascular bundles were surrounded by the inner mestome sheath and the outer parenchymatous bundle sheath with intercellular spaces. The mestome sheath cells degraded in their early development and remained in a collapsed state, although the suberized lamellae retained polylamellate features. Plastids with a crystalline structure, sometimes membrane-bounded, were found in the epidermal cells. The close interveinal distance was 35–50 μm inC. iria, whereas it was 157–218 μm inC. siderosticta. These ultrastructural characteristics were discussed in relation to their photosynthetic functions.

Plantlet regeneration from callus initiated from flower buds in the wild species Allium senescens var. minor

Callus regeneration was observed from flower buds of Allium senescens var. minor inoculated in BDS, MS or B5 medium supplemented with 4.4 μM benzyladenine alone or in combination with 4.5 μM 2,4-dichlorophenoxy-acetic acid (2,4-d), with 2,4-d and kinetin (4.5 μM/4.6 μM) or with 5.3 μM naphthaleneacetic acid. Ovules enlarged initially but the embryogenic tissue degenerated as callus development progressed from the nectar regions of the petals. Shoot buds and leaf primordia developed from the meristematic protuberances that originated from the surface of the callus. BDS medium with 4.5 μM 2,4-d and 13.3 μM BA was most suitable for shoot multiplication. The regenerated shoots were rooted in respective liquid medium without any growth regulators and successfully transferred to soil with 90% survival rate.

Development of the Kranz structure during leaf growth in C4 Euphorbia maculate

The development of the Kranz structure was investigated in leaves of C4Euphorbia maculata using electron microscopy. Four leaf stages, i.e., primordial, immature, young, and mature, were examined, based on the photosynthetic tissue that surrounded the veins. The examination revealed how cells differentiated into distinct bundle sheath cells (BSCs) and mesophyll cells (MCs). Specialization of the BSCs was invariably associated with the development of the veins as well as the MCs. Precursors for BSC and MC were recognizable fairly early, at the immature stage, according to their position and differential enlargement Once these precursors were delimited from the procambial area, differentiation into each cell type occurred synchronously, in a coordinated manner. All cells enlarged as they were displaced from the Kranz precursor area, but the BSC precursors were initially larger and remained relatively larger than the other cell types throughout leaf development The developmental changes sharply distinguished BSCs from the adjacent MCs at the onset of Kranz formation and continued until maturity. Chloroplast enlargement also occurred during cell displacement, but the rate of enlargement was greater in BSCs, resulting in larger chloroplasts at later stages. However, no significant structural differences were detected among the chloroplasts of BSC and MC in the early stages. Most of the specialized features appeared at the young-leaf stage; structural dimorphism became prominent at the later stages. This enhanced development of the BSC chloroplasts was correlated with asymmetric distribution of cellular components. In addition, the BSC formed thin primary pit fields with numerous plasmodesmata. Peripheral reticulum was present, but generally was not conspicuous. We also discuss the characteristics of leaf anatomy and ultrastructure inE. maculata as they relate to the C4 photosynthetic pathway.

Sequence polymorphisms in ribosomal RNA genes and variations in chromosomal loci of Oenothera odorata and O. laciniata

Numerous studies on Oenothera species have been investigated for the physiological and ecological characteristics. However, no such an information based on molecular cytogenetic has yet been introduced, in turn, is very essential for identifying sequence polymorphisms of rRNA genes with their loci on mitotic phases for further biological researches. In this study, sequence variations of rRNA genes in Oenothera odorata and O. laciniata were examined to identify informative factors as unique or repeat sequences in intra- and inter-specific variations. Intra-specific variation revealed that the sequences of the rRNA genes including the spacer regions were highly conserved revealing only a few variations. From the inter-specific variation, spacer regions of species were completely different as (1) non-homologous sequences in NTS and (2) different type repeat sequences in ITS 1, 2 and 5.8S rRNA, whereas the remaining coding regions were highly conserved. FISH was carried out on mitotic phases using the 5S rDNA of the analyzed sequences. From the interphase and metaphase chromosomes of the examined species, two loci of 5S rDNA in O. odorata and four loci in O. laciniata were confirmed on the telomeric region of the short arm. Due to the small size and unclear centromere of the chromosomes, karyotype could not be completed. However, we confirmed that the chromosomes are organized by meta- and acrocentric chromosomes and the chromosomes with identified loci were assumed to be paired by the location of loci at the telomeric region on the short arm with relative lengths.

A new approach of successful denaturation of human sperm chromatin without undergoing decondensation treatment

Due to the highly folded chromatin in human sperm, a proper nuclear swelling was highly required to localize certain DNA inside the sperm nuclei. Therefore, previous method for denaturation of sperm chromatin had to adopt chemical agents of decondensation treatment using Heparin/DTT or LIS, directly applied into the sperm cell before further examinations by FISH. Nevertheless, authors still had questions arising on the efficiency of decondensation process which is directly related to the quality of fluorescence signals, which, in turn, underlies the reliability of the results in frequencies and compositions as that still not a proper solution to overcome the major limitation in sperm studies. In this study, we approached a newly improved denaturation process of sperm chromatin without undergoing decondensation treatments that intact human sperms were used as the first time to localize examined DNA, and also two rounds of sequential FISH was carried out in the same sperm cell for the first time to investigate an idea of nullisomy of given chromosomes. From the results, all the variable centromeric compositions of sperm chromosomes 7, 8, and sex chromosomes revealed with significantly given frequencies of monosomy, disomy and nullisomy. Moreover, nullisomy was identified as a true absence of given chromosome rather than technical error of hybridization failure under decondensation. From the findings by our modified denaturation of human sperm chromatin without undergoing decondensation treatment, we strongly believe that more advanced and deep studies in human sperm of nuclear architecture and frequencies can be progressed with significantly reliable results.

Molecular database construction of rDNA and polyploidy identification by FISH on Achyranthes japonica (Miq.) Nakai

Numerous studies on Achyranthes japonica have been investigated on physiological and pharmacological interests, however, no information of molecular cytogenetic level has been introduced yet, which, in turn, it is very essential to construct the molecular database and polyploidy primarily for any further researches. In this study, full unit of 5S and partial unit of 45S rDNA including two ITS regions were analyzed with chromosomal loci of examined rRNA genes on mitotic chromosomes. From the sequence analysis of rDNA unit, only a few polymorphic sites revealed in both coding and non-coding regions of NTS, ITS 1 and 2 giving an idea that no inter-specific hybrids has been involved in A. japonica as highly conserved specie through the high evolutionary period. To identify the polyploidy of A. japonica which has been unclear due to the very small size and unspecific centromere, FISH analysis was carried out on mitotic chromosomes using analyzed 5S and pTa-71 for 45S rDNA. 2 loci of each 5S and 45S rDNA were confirmed on the short arm of different chromosomes which were assumed to be a pair of each rDNA by a very similar size. Thus, the analyzed sequence of rDNA with low polymorphic rates and the identified loci on a relative size chromosome suggest the polyploidy of A. japonica as highly conserved diploid specie.

Sequence Polymorphism and Chromosomal Localization of 5S rDNA of Three Cultivated Varieties of Sweetpotato (Ipomoea batatas (L.) Lam.)

The 5S rDNA of plant is organized into clusters of tandem repeat units which include a coding region of 5S rRNA gene and variable sequences of nontranscribed spacer (NTS). In this study, we investigated sequence polymorphism and chromosomal localization of 5S rDNA in three cultivated varieties of sweet potato (Ipomoea batatas Lam.). Two different PCR products of 5S rDNA were amplified from all three varieties, as approximately 0.25 kb and 0.34 kb with multiples. In sequence analysis, the 5S rDNA ofI. batatas were discriminated from four consensus sequences by in reasonable sizes and molecular informative factors. Four consensus sequences were divided into three short sequences, including 263, 253, and 243 – 283 bp by sequence variation between 160 and 186 bp in NTS region, and one long sequence with 340 bp. To identify molecular relationship among varieties, phylogenetic analysis was applied. A total of 35 sequenced clones in this study were classified into four groups in phylogenetic tree. Interestingly, two varieties included all four groups, but one variety only two groups. To localize the physical map of 5S rDNA, fluorescencein situ hybridization (FISH) was performed in metaphase chromosomes of each varieties. In 90 chromosomes ofI. batatas, 6 loci of 5S rDNA were detected in chromosomes for all varieties. Our results will help to further more understand the genomic relationship inI. batatas, to investigate molecular relationship among varieties.