KEGG(Kyoto Encyclopedia of Genes and Genomes)〔和文〕 (特集 ゲノム医学の現在と未来--基礎と臨床) -- (データベース)

Nature’s hierarchical materials

Lignins are complex natural polymers resulting from oxidative coupling of, primarily, 4-hydroxyphenylpropanoids. An understanding of their nature is evolving as a result of detailed structural studies, recently aided by the availability of lignin-biosynthetic-pathway mutants and transgenics. The currently accepted theory is that the lignin polymer is formed by combinatorial-like phenolic coupling reactions, via radicals generated by peroxidase-H2O2, under simple chemical control where monolignols react endwise with the growing polymer. As a result, the actual structure of the lignin macromolecule is not absolutely defined or determined. The ``randomness'' of linkage generation (which is not truly statistically random but governed, as is any chemical reaction, by the supply of reactants, the matrix, etc.) and the astronomical number of possible isomers of even a simple polymer structure, suggest a low probability of two lignin macromolecules being identical. A recent challenge to the currently accepted theory of chemically controlled lignification, attempting to bring lignin into line with more organized biopolymers such as proteins, is logically inconsistent with the most basic details of lignin structure. Lignins may derive in part from monomers and conjugates other than the three primary monolignols (p-coumaryl, coniferyl, and sinapyl alcohols). The plasticity of the combinatorial polymerization reactions allows monomer substitution and significant variations in final structure which, in many cases, the plant appears to tolerate. As such, lignification is seen as a marvelously evolved process allowing plants considerable flexibility in dealing with various environmental stresses, and conferring on them a striking ability to remain viable even when humans or nature alter ``required'' lignin-biosynthetic-pathway genes/enzymes. The malleability offers significant opportunities to engineer the structures of lignins beyond the limits explored to date.

/pdf/lignins-natural-polymers-from-oxidative-coupling-of-4-oxcvb84q0y.pdf

Lignins: Natural polymers from oxidative coupling of 4-hydroxyphenyl- propanoids

L-tryptophan, L-phenylalanine, and L-tyrosine are aromatic amino acids (AAAs) that are used for the synthesis of proteins and that in plants also serve as precursors of numerous natural products, such as pigments, alkaloids, hormones, and cell wall components. All three AAAs are derived from the shikimate pathway, to which ≥30% of photosynthetically fixed carbon is directed in vascular plants. Because their biosynthetic pathways have been lost in animal lineages, the AAAs are essential components of the diets of humans, and the enzymes required for their synthesis have been targeted for the development of herbicides. This review highlights recent molecular identification of enzymes of the pathway and summarizes the pathway organization and the transcriptional/posttranscriptional regulation of the AAA biosynthetic network. It also identifies the current limited knowledge of the subcellular compartmentalization and the metabolite transport involved in the plant AAA pathways and discusses metabolic engineering efforts aimed at improving production of the AAA-derived plant natural products.

The shikimate pathway and aromatic amino acid biosynthesis in plants.

SECONDARY WALL-ASSOCIATED NAC DOMAIN PROTEIN1 (SND1) is a master transcriptional switch activating the developmental program of secondary wall biosynthesis. Here, we demonstrate that a battery of SND1-regulated transcription factors is required for normal secondary wall biosynthesis in Arabidopsis thaliana. The expression of 11 SND1-regulated transcription factors, namely, SND2, SND3, MYB103, MYB85, MYB52, MYB54, MYB69, MYB42, MYB43, MYB20, and KNAT7 (a Knotted1-like homeodomain protein), was developmentally associated with cells undergoing secondary wall thickening. Of these, dominant repression of SND2, SND3, MYB103, MYB85, MYB52, MYB54, and KNAT7 significantly reduced secondary wall thickening in fiber cells. Overexpression of SND2, SND3, and MYB103 increased secondary wall thickening in fibers, and overexpression of MYB85 led to ectopic deposition of lignin in epidermal and cortical cells in stems. Furthermore, SND2, SND3, MYB103, MYB85, MYB52, and MYB54 were able to induce secondary wall biosynthetic genes. Direct target analysis using the estrogen-inducible system revealed that MYB46, SND3, MYB103, and KNAT7 were direct targets of SND1 and also of its close homologs, NST1, NST2, and vessel-specific VND6 and VND7. Together, these results demonstrate that a transcriptional network consisting of SND1 and its downstream targets is involved in regulating secondary wall biosynthesis in fibers and that NST1, NST2, VND6, and VND7 are functional homologs of SND1 that regulate the same downstream targets in different cell types.

/pdf/a-battery-of-transcription-factors-involved-in-the-1v6n3nmbah.pdf

A battery of transcription factors involved in the regulation of secondary cell wall biosynthesis in Arabidopsis.

Wood Properties of 6 Fast-growing Eucalyptus Species Grown in Japan

To examine the effect of gravity on lignin content and deposition in plant cells, we used ultraviolet (UV) microspectrophotometry and chemical methods to investigate the secondary xylem of Prunus jamasakura grown on a three-dimensional (3D) clinostat, which simulates microgravity. The stem of the 3D-clinostat specimens elongated with bending and the width of their secondary phloem increased. The UV absorbance of the 3D-clinostat specimens at 278 nm was higher than that of the control specimens, which were grown on the ground, in the wood fiber cell corner middle lamella, compound middle lamella, and fiber secondary wall; the UV absorbance in the vessel secondary wall did not differ between the specimens. The lignin content in the stem, including the bark, of the 3D-clinostat specimens, as determined using an acetyl bromide method, was less than that of the control specimens. In the specimens that differentiated on a 3D clinostat, the amount of lignin in the wood fibers increased, while the proportion of the lignified xylem in the stem decreased relative to control values.

/pdf/ultraviolet-microspectrophotometric-investigation-of-the-2frsj1831f.pdf

Ultraviolet microspectrophotometric investigation of the distribution of lignin in Prunus jamasakura differentiated on a three-dimensional clinostat

Although it is well known that sap exudation during early spring in temperate deciduous trees occurs in response to daytime warming and nighttime cooling, the mechanisms of the process are not yet fully understood. Previous theories suggested that changes in stress in the wood caused by daytime heating and nighttime cooling might be linked with sap flow. Consequently, a study of itaya-kaede maple (Aver mono) and shirakamba birch (Betula platyphylla var.japonica) looked at tangential strains. One-hour intervals for 3 years of the tangential strains on the inner bark of stem and root were measured in itaya-kaede maple and shirakamba birch during the sap exudation season. The measurements indicated different mechanisms of sap exudation in these two trees. During the sap exudation season in late March, when the temperature fluctuated around 0°C, the tangential strain in the root of itaya-kaede maple showed expansion in the daytime and contraction at night. Conversely, in early April the tangential strain in the root of shirakamba birch exhibited contraction in the daytime and expansion at night. The changes in tangential strains in itaya-kaede maple were attributed to conditioning, a known concept used to explain the uptake mechanism of soil water in maple and its exudation during early spring. However, because the change in tangential strain in the roots of shirakamba birch was similar to that found during the rampant season, sap exudation was not attributed to conditioning but to the plentiful supply of water from the roots. The implications of these mechanisms are that different sap harvesting techniques may be appropriate for different tree species.

/pdf/investigation-of-change-in-tangential-strain-on-the-inner-2tzlzckyeu.pdf

Investigation of change in tangential strain on the inner bark of the stem and root of Betula platyphylla var. japonica and Acer mono during sap season

When a squared lumber such as a beam and/or a bearer is produced from a log, they often show warps. Warp of the sawn lumber is practically not serious when the pith is located at the center of the cross-section, as in the lumber-with-pith, but causes serious problems in the lumber-without-pith. In the present study, a mechanical model was introduced to explain lumber warping based on beam theory, and a numerical simulation using the introduced model examined how the magnitude and type of the residual stress distribution would affect the warps of the lumbers sawn from the four-sided cants with various sizes and shapes in their cross-sections, and how the different sawing patterns would affect the production efficiency of the straight lumber, which is manufactured from the four-sided cant by quartering and subsequent correction sawing. As a result, the following suggestions were obtained. The warp of the sawn lumber is affected by the type and the magnitude of the inherent strain distribution in the log and furthermore by the cross-sectional shape and/or size of the four-sided cant. Production efficiency of the straight lumbers differs depending on the sawing patterns. In the present study, two types of sawing patterns (a) and (b) were assumed. The sawing pattern (a) gave better production efficiency than the sawing pattern (b) in the sense that straight lumbers are produced with higher volumes as well as with less variation in dimension of the cross-section.

Effect of residual stress distribution in a log on lumber warp due to sawing: a numerical simulation based on the beam theory

We investigated the influences of chemical pretreatments and subsequent repeated dry-and-wet (RDW) treatments on the mechanical linkage between cellulose microfibrils (CMFs) and matrix substances (MT) in wood cell wall. Sugi (Cryptomeria japonica D. Don) quarter-sawn specimens were subjected to various types of chemical pretreatments, including ethanol and benzene extraction, delignification, alkali extraction, and hygrothermal treatment, to give substantial damages to principal constituents of wood cell wall, followed by 5 times of RDW treatment. After giving chemical pretreatment, the d-spacing of (200) lattice plane of cellulose Iβ (d
 200), the crystallinity of wood cell wall, and the crystal size of the cellulose were measured at the fiber saturated point, using X-ray diffraction techniques. Thereafter, these were measured again at the absolutely dried condition in the process of subsequent RDW treatments. The d
 200 in specimens, which were given to light pretreatments, largely expanded by drying at the early stages of RDW treatments, then it decreased and became constant after 5 times of RDW treatments. On the other hand, d
 200 in specimens, which were given to intensive pretreatments, remained constant at a relatively small level throughout the whole process of RDW treatments. After 5 times of RDW treatments, d
 200 became similar values between the above two groups. This suggests that RDW treatments have similar effects as intensive pretreatments, which induce substantial damages to the microscopic region in the wood cell wall such as interfacial separation between CMF, MT, and so forth. These defects would weaken mechanical interaction between CMF and MT in the wood cell wall during drying.

https://link.springer.com/content/pdf/10.1007%2Fs10086-013-1347-1.pdf

On the mechanical interaction between cellulose microfibrils and matrix substances in wood cell walls: effects of chemical pretreatment and subsequent repeated dry-and-wet treatment

Masato Yoshida

Papers

Wood Properties of 6 Fast-growing Eucalyptus Species Grown in Japan

Ultraviolet microspectrophotometric investigation of the distribution of lignin in Prunus jamasakura differentiated on a three-dimensional clinostat

Investigation of change in tangential strain on the inner bark of the stem and root of Betula platyphylla var. japonica and Acer mono during sap season

Effect of residual stress distribution in a log on lumber warp due to sawing: a numerical simulation based on the beam theory

On the mechanical interaction between cellulose microfibrils and matrix substances in wood cell walls: effects of chemical pretreatment and subsequent repeated dry-and-wet treatment