Transcriptome Analysis Reveals a Gene Expression Pattern That Contributes to Sugarcane Bud Propagation Induced by Indole-3-Butyric Acid

Abstract

Sugarcane is a cash crop that plays an integral part in the sugar industry. The Sustainable Sugarcane Initiative (SSI) has been adopted globally, ensuring enough and aiming for more yield, helping increase disease-free sugarcane cultivation. Single-bud seeds could be the best approach for sugarcane cultivation. Indole-3-butyric acid (IBA) is a rooting agent utilized significantly in seedling propagation. Greenhouse experiment results discovered the significant growth promotion in sugarcane seedlings and accumulation of plant hormones at 100 ppm IBA. Next, we performed transcriptomic analysis of sugarcane buds using RNA sequencing and compared their gene expression during root development due to affect of IBA (100 ppm). A total of 113,475 unigenes were annotated with an average length of 836 bp (N50 = 1,536). The comparative RNA-seq study between the control (CK) and IBA-treated (T) buds showed significant differentially expressed unigenes (494 upregulated and 2086 downregulated). The IBA influenced major biological processes including metabolic process, the cellular process, and single-organism process. For cellular component category, cell, cell part, organelle, membrane, and organelle part were mainly affected. In addition, catalytic activity and binding were primarily affected in the molecular function categories. Furthermore, the expression of genes related to plant hormones and signaling pathways was analyzed by qRT-PCR, which was consistent with the RNA-seq expression profile. This study provides new insights into the IBA response to the bud sprouting in sugarcane based on RNA sequencing, and generated information could help further research on breeding improvement of sugarcane.

Transcriptomic responses of Saccharum spontaneum roots in response to polyethylene glycol – 6000 stimulated drought stress

“…Up-regulated genes were randomly selected for verification according to Wu et al (2018a) and Xu et al (2022). The validated samples, such as A 1 (0 h), A 2 (2 h), A 3 (4 h), A 4 (8 h) and A 5 (24 h), treated with PEG-6000 (25%) for 0, 2, 4, 8 and 24 h, respectively.…”

“…Abiotic stress is a major problem to sustainable agriculture crop productivity around the globe, which can potentially affect the average crop production over 50% (Cui et al, 2017;Naeem et al, 2018;Waqas et al, 2019;Verma et al, 2021;Verma et al, 2022). Drought stress is one of the severe abiotic stress that inhibit plant growth, development and yield (Baiazidi-Aghdam et al, 2016).…”

“…It is well-established that drought stress may impair various morpho-physiological, anatomical, cellular and metabolic processes associated with the regulation of plant development (Yoo et al, 2013;Liu et al, 2013;Cui et al, 2017). It also enhances leaf fall and chlorophyll damage, downregulate photosynthetic efficiency and loss in leaf area expansion/development, resulting in low plant productivity and sometimes total crop failure (Jiang et al, 2016;Kamran et al, 2018;Naeem et al, 2018;Verma et al, 2020;Verma et al, 2022). Polyethylene glycon (PEG) having molecular weight of 6000 is a natural polymer that is water soluble and nonionic.…”

“…It causes oxidative damage to cell membranes, proteins, effective enzymatic activities [superoxide dismutase (SOD), catalase (CAT), peroxidase (POD), and ascorbate peroxidase (APX)], non-enzymatic (phenolic acids, carotenoids, flavonoids, ascorbic acid, proline, etc. ), RNA and DNA (Dawood and El-Awadi, 2015;Baiazidi-Aghdam et al, 2016;Cui et al, 2017;Laxa et al, 2019;Verma et al, 2022). ROS plays important roles in maintaining normal plant growth, development and improving stress resistance capacity.…”

What do we know from the transcriptomic studies investigating the interactions between plants and plant growth-promoting bacteria?

“…While results from these studies are encouraging, similar studies investigating the interactions between PGPB and different crops need to be pursued. In recent years, there have been some studies using genetic and molecular approaches in crops such as rice, wheat, and sugarcane to investigate these interactions at the host level, which is encouraging ( Chen and Zhu, 2013 ; Camilios-Neto et al, 2014 ; Chen et al, 2015 ; Paungfoo-Lonhienne et al, 2016 ; Xie et al, 2017 ; Rekha et al, 2018 ; Wu et al, 2018 ; Brusamarello-Santos et al, 2019 ; King et al, 2019 ; Thomas et al, 2019 ; Liu et al, 2020 ; Malviya et al, 2020 ; Cook et al, 2022 ; Guo et al, 2022 ; Wiggins et al, 2022 ; Xu et al, 2022 ). This mini-review focuses on key findings from some of these studies and discusses what lies ahead.…”