Search Results (5)

Internode length is a crucial phenotypic trait of bamboo, significantly impacting its processing and utilization. Phyllostachys edulis ‘Tubaeformis’ (Shengyin Bamboo), a variety of Moso bamboo, exhibits drastically shortened internodes, making it a valuable ornamental bamboo species. We used PacBio single-molecule long-read sequencing and second-generation sequencing to identify genome-wide alternative splicing (AS) events in Moso bamboo and its dwarf mutant, Shengyin bamboo, and compared the differences between the two. Our sequencing data unveiled 139,539 AS events, with retained introns as the most prevalent events. A large number of genes were differentially alternatively spliced (DAS) between Moso bamboo and Shengyin bamboo, and genes related to RNA splicing were most significantly enriched. The high expression of SR isoforms in the 24th internode of Moso bamboo is likely the main factor leading to its greater number of alternative splicing events. Alternative splicing affects the functional domains of partial GRF, E2F, and NAM isoforms, leading to the loss of domains in some isoforms and enabling some isoforms to acquire new functional domains, and this phenomenon is more common in Shengyin bamboo. AS modifies the functional domains of certain GRF isoforms, frequently resulting in domain losses or endowing isoforms with novel domains, and this phenomenon is more common in Shengyin bamboo. We used PacBio single-molecule long-read sequencing and second-generation sequencing to identify genome-wide alternative splicing (AS) events in Moso bamboo and its dwarf mutant, Shengyin Bamboo and compared the differences between the two. Full article

Fructose-1,6-bisphosphate aldolase (FBA) is a pivotal enzyme in various metabolic pathways, including glycolysis, gluconeogenesis, and the Calvin cycle. It plays a critical role in CO₂ fixation. Building on previous studies on the FBA gene family in Moso bamboo, our study revealed the biological function of PeFBA6. To identify CSN5 candidate genes, this study conducted a yeast two-hybrid library screening experiment. Subsequently, the interaction between CSN5 and PeFBA6 was verified using yeast two-hybrid and LCI experiments. This investigation uncovered evidence that FBA may undergo deubiquitination to maintain glycolytic stability. To further assess the function of PeFBA6, it was overexpressed in rice. Various parameters were determined, including the light response curve, CO₂ response curve, and the levels of glucose, fructose, sucrose, and starch in the leaves of overexpressing rice. The results demonstrated that overexpressed rice exhibited a higher saturation light intensity, net photosynthetic rate, maximum carboxylation rate, respiration rate, and increased levels of glucose, fructose, and starch than wild-type rice. These findings indicated that PeFBA6 not only enhanced the photoprotection ability of rice but also improved the photosynthetic carbon metabolism. Overall, this study enhanced our understanding of the function of FBA and revealed the biological function of PeFBA6, thereby providing a foundation for the development of excellent carbon fixation bamboo varieties through breeding. Full article

Moso bamboo (Phyllostachys edulis) is a crucial species among the 500 varieties of bamboo found in China and plays an important role in providing ecosystem services. However, remote sensing studies on the invasion of Moso bamboo, especially its impact on forest biodiversity, are limited. Therefore, we explored the feasibility of using Sentinel-2 multispectral data and digital elevation data from the Shuttle Radar Topography Mission and random forest (RF) algorithms to monitor changes in forest diversity due to the spread of Moso bamboo. From October to November 2019, researchers conducted field surveys on 100 subtropical forest plots in Zhejiang Province, China. Four biodiversity indices (Margalef, Shannon, Simpson, and Pielou) were calculated from the survey data. Subsequently, after completing 100 epochs of training and testing, we developed the RF prediction model and assessed its performance using three key metrics: coefficient of determination, root mean squared error, and mean absolute error. Our results showed that the RF model has a strong predictive ability for all indices except for the Pilou index, which has an average predictive ability. These results demonstrate the feasibility of using remote sensing to monitor forest diversity changes caused by the spreading of Moso bamboo. Full article

In recent years, bamboo has been well exploited in the pulp and paper industry. Moso bamboo (Phyllostachys edulis (Carriere) J. Houzeau; hereafter M), originated from China with a long history of cultivation as the most abundant resource with the widest distribution area among bamboo plants in China. In this study, Moso bamboo (M) and nine bamboo varieties were selected in the bamboo germplasm resources storage bank of the Anhui Taiping Experimental Station of ICBR. The characteristics of their cell structures were compared, and the differences were analyzed from a genetic perspective. The results showed that M had the highest fiber cell length, fiber cell width, length, and parenchyma width, while GJ showed the lowest of these measurements [P. edulis ’Kikko-chiku’,G.H.Lai]. The fiber wall thickness of Q [P. edulis f. obliquinoda (Z.P.Wang et N.X.Ma) Ohrnberger] was the smallest, while its fiber lumen diameter was the highest in the group. The parenchyma wall thickness and parenchyma lumen diameter of Q were the smallest in the group. The fiber cells of M and Q had better flexibility, which is conducive to improving the tensile strength, break resistance, and folding resistance of paper made from these materials. SY and GJ may be more suitable for ornamental items because of their special appearances. The purpose of this study was to explore the genetic variation patterns of various cell structure indicators among Moso bamboo and its varieties, as well as to develop a strategy of bamboo growing and lumbering based on the local conditions, providing reference data for the utilization of non-woody forest resources. Full article

Moso bamboo is an important forest species with a variety of ecological, economic, and cultural values. However, the gene annotation information of moso bamboo is only based on the transcriptome sequencing, lacking the evidence of proteome. The lignification and fiber in moso bamboo leads to a difficulty in the extraction of protein using conventional methods, which seriously hinders research on the proteomics of moso bamboo. The purpose of this study is to establish efficient methods for extracting the total proteins from moso bamboo for following mass spectrometry-based quantitative proteome identification. Here, we have successfully established a set of efficient methods for extracting total proteins of moso bamboo followed by mass spectrometry-based label-free quantitative proteome identification, which further improved the protein annotation of moso bamboo genes. In this study, 10,376 predicted coding genes were confirmed by quantitative proteomics, accounting for 35.8% of all annotated protein-coding genes. Proteome analysis also revealed the protein-coding potential of 1015 predicted long noncoding RNA (lncRNA), accounting for 51.03% of annotated lncRNAs. Thus, mass spectrometry-based proteomics provides a reliable method for gene annotation. Especially, quantitative proteomics revealed the translation patterns of proteins in moso bamboo. In addition, the 3284 transcript isoforms from 2663 genes identified by Pacific BioSciences (PacBio) single-molecule real-time long-read isoform sequencing (Iso-Seq) was confirmed on the protein level by mass spectrometry. Furthermore, domain analysis of mass spectrometry-identified proteins encoded in the same genomic locus revealed variations in domain composition pointing towards a functional diversification of protein isoform. Finally, we found that part transcripts targeted by nonsense-mediated mRNA decay (NMD) could also be translated into proteins. In summary, proteomic analysis in this study improves the proteomics-assisted genome annotation of moso bamboo and is valuable to the large-scale research of functional genomics in moso bamboo. In summary, this study provided a theoretical basis and technical support for directional gene function analysis at the proteomics level in moso bamboo. Full article