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        Genome-wide identification and functional prediction of silicon (Si) transporters in poplar (Populus trichocarpa)

        Hassan Md Mahmudul,Martin Samir,Feng Kai,Yates Timothy B.,Yuan Guoliang,Martin Madhavi Z.,Martin Stanton,Muchero Wellington,Griffiths Natalie A.,Weston David J.,Yang Xiaohan 한국식물생명공학회 2023 Plant biotechnology reports Vol.17 No.2

        Silicon (Si) enhances plant tolerance to various biotic and abiotic stressors such as salinity, drought, and heat. In addition, Si can be biomineralized within plants to form organic carbon-containing phytoliths that can have ecosystem-level consequences by contributing to long-term carbon sequestration. Si is taken up and transported in plants via different transporter proteins such as influx transporters (e.g., Lsi1, Lsi6) and efflux transporters (e.g., Lsi2). Additionally, the imported Si can be deposited in plant leaves via silicification process using the Siliplant 1 (e.g., Slp1) protein. Functional homologs of these proteins have been reported in different food crops. Here, we performed a genome-wide analysis to identify different Si transporters and Slp1 homologs in the bioenergy crop poplar (Populus trichocarpa Torr. and A. Gray ex W. Hook). We identified one channel-type Si influx transporter (PtLsi1; Potri.017G083300), one Si efflux transporter (PtLsi2; Potri.012G144000) and two proteins like Slp1 (PtSlp1a; Potri.004G168600 and PtSlp1b; Potri.009G129900) in the P. trichocarpa genome. We found a unique sequence (KPKPPVFKPPPVPI) in PtSlp1a which is repeated six times. Repeated presence of this sequence in PtSlp1a indicates that this protein might be important for silicification processes in P. trichocarpa. The mutation profiles of different Si transporters in a P. trichocarpa genome-wide association study population identified significant and impactful mutations in Potri.004G168600 and Potri.009G129900. Using a publically accessible database (http://bar.utoronto.ca/eplant_poplar/), digital expression analysis of the putative Si transporters in P. trichocarpa found low to moderate expression in the anticipated tissues, such as roots and leaves. Subcellular localization analysis found that PtLsi1/PtLsi2 are localized in the plasma membrane, whereas PtSlp1a/PtSlp1b are found in the extracellular spaces. Protein–Protein interaction analysis of PtLsi1/PtLsi2 identified Delta-1-pyrroline-5-carboxylate synthase (P5CS) as one of the main interacting partners of PtLsi2, which plays a key role in proline biosynthesis. Proline is a well-known participant in biotic and abiotic stress tolerance in plants. These findings will reinforce future efforts to modify Si accumulation for enhancing plant stress tolerance and carbon sequestration in poplar.

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        Multivariate Analysis of Laser-Induced Breakdown Spectroscopy Spectra of Soil Samples

        Yang, Ningfang,Eash, Neal S.,Lee, Jaehoon,Martin, Madhavi Z.,Zhang, Yong-Seon,Walker, Forbes R.,Yang, Jae E. Lippincott Williams Wilkins, Inc. 2010 Soil science Vol.175 No.9

        ABSTRACT: Laser-induced breakdown spectroscopy (LIBS) is a rapid quantitative analytical technique that can be used to determine the elemental composition of numerous sample matrices, and it has been successfully applied in many types of samples. However, for chemically and physically complex soil samples, its quantitative analytical ability is controversial. Multivariate analytical techniques have great potential for analyzing the complex LIBS spectra. To demonstrate the feasibility of LIBS as an alternative technique to quantitatively analyze soil samples, the univariate and the partial least square (PLS) techniques are used to analyze the LIBS spectra of 12 soil samples and to build calibration models predicting Cu and Zn concentrations. The results show that PLS can significantly improve the analytical results compared with the univariate technique. The normalized root mean square error (NRMSE) and r of the univariate models are 16.60% and 0.71 in calibration and 18.80% and 0.62 in prediction for Cu and 18.97% and 0.62 in calibration and 22.81% and 0.45 in prediction for Zn. For the PLS models using the spectral range 300 to 350 nm, the NRMSE and r are 1.94% and 0.99 for both Cu and Zn in calibration and 7.90% and 0.94 for Cu and 8.14% and 0.94 for Zn in prediction, respectively. Compared with the univariate technique, PLS improves the NRMSE 87.53% and 87.78% in calibration and 44.47% and 53.44% in prediction for Cu and Zn, respectively. The results indicate that PLS can improve the quantitative analytical ability of LIBS for soil sample analysis.

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