Article
Medicine, General & Internal
Xiaowei Zhang, Trevor J. McFarland, Kristina Vartanian, Yong Zhu, Christina A. Harrington, Cong-Qiu Chu
Summary: Isolating high quality RNA from articular cartilage has been challenging due to low cellularity and the high abundance of extracellular matrix and proteoglycan proteins. Methods developed for larger cartilage specimens are less successful with smaller tissue inputs. An improved RNA extraction method is needed for small focal defect cartilage specimens.
INTERNATIONAL JOURNAL OF MEDICAL SCIENCES
(2022)
Article
Plant Sciences
Nazih Y. Rebouh, Toufik Aliat, Petr M. Polityko, Dalila Kherchouche, Nadia Boulelouah, Sulukhan K. Temirbekova, Yuliya Afanasyeva, Dmitry E. Kucher, Vadim G. Plushikov, Elena A. Parakhina, Mourad Latati, Anvar S. Gadzhikurbanov
Summary: This study aimed to investigate the effectiveness of two integrated crop protection systems in controlling wheat diseases under field conditions. The results showed that the combined treatment (T2) was the most effective in controlling fungal diseases, and winter wheat variety Moscovskaya 40 had the highest yield, protein content, and 1000-grain weight.
Article
Plant Sciences
Ning Li, Tongtong Liu, Feng Guo, Jinwen Yang, Yugang Shi, Shuguang Wang, Daizhen Sun
Summary: This study identified lncRNAs, miRNAs, and genes related to drought stress in wheat through whole-transcriptome sequencing and explored their regulatory modules. The results revealed the potential role of these regulatory modules in wheat drought tolerance.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Virology
Carla Dizon Redila, Ved Prakash, Shahideh Nouri
Summary: Novel plant and fungal-associated viral sequences, including wheat umbra-like virus and wheat-associated vipovirus, were identified in addition to documented wheat viruses. These discoveries are important for assessing potential threats to the wheat industry and exploring new biological control agents.
Article
Microbiology
Muhammad Usama Marghoob, Aniqa Nawaz, Muhammad Ahmad, Muhammad Qandeel Waheed, Muhammad Hassaan Khan, Muhammad Imtiaz, Ejaz ul Islam, Asma Imran, Fathia Mubeen
Summary: This study investigated the potential of indigenous microbial flora in salt-affected agroecological zones of Pakistan to enhance wheat production in saline areas. Bacterial strains with multiple characteristics were selected to develop a halotolerant bacterial consortium, which showed significant improvement in plant growth parameters. Fungal strains were also used separately and showed positive correlation with agronomical parameters. Field trials indicated the efficiency of these microbes in enhancing wheat growth. Promising results indicate the possibility of developing saline-specific biofertilizers and sustainable agriculture practices.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Environmental Sciences
Minling Gao, Linsen Bai, Ling Xiao, Hongchang Peng, Qiaoting Chen, Weiwen Qiu, Zhengguo Song
Summary: This study investigated the comprehensive effects of micro (nano)plastics and phthalate esters (PAEs) on endophytes, diversity, and wheat growth. The results showed that the size of polystyrene (PS) particles was the major factor causing oxidative damage and altering the endogenous homeostasis of wheat roots. Increasing the size of PS particles promoted the relative abundance of dominant endophytes, leading to an increase in root biomass.
SCIENCE OF THE TOTAL ENVIRONMENT
(2024)
Article
Agriculture, Multidisciplinary
Keqing Mu, Xiaojun Ren, Hao Yang, Ting Zhang, Weiyi Yan, Fengping Yuan, Jianhui Wu, Zhensheng Kang, Dejun Han, Ruijie Deng, Qingdong Zeng
Summary: This study developed a nucleic acid assay based on CRISPR-Cas12a for early and rapid diagnosis of wheat FHB. Through dual recognition with PCR primers and gRNA hybridization, it achieved specific discrimination of F. graminearum from other pathogenic fungi. The method exhibited high sensitivity and was able to diagnose infections as early as 4 days.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2022)
Article
Biotechnology & Applied Microbiology
M. Bouzouina, R. Kouadria, B. Lotmani
Summary: This study examined the ability of isolated endophytic fungi to enhance salt stress tolerance in wheat. Results showed that fungi like A. chlamydospora and F. equiseti improved wheat emergence and root growth under moderate to severe salinity conditions. The high proline content and sugar level in leaves of inoculated wheat seedlings indicate the potential for endophytic fungi bio-inoculation to improve wheat tolerance to salt stress.
JOURNAL OF APPLIED MICROBIOLOGY
(2021)
Article
Multidisciplinary Sciences
Nazanin Amirbakhtiar, Ahmad Ismaili, Mohammad-Reza Ghaffari, Raheleh Mirdar Mansuri, Sepideh Sanjari, Zahra-Sadat Shobbar
Summary: This study investigated the transcriptome of wheat leaves in a salt-tolerant cultivar to identify genes and mechanisms involved in response to salinity stress. The results indicated that genes associated with phenylpropanoid biosynthesis, transporters, transcription factors, and hormone signal transduction pathways might play roles in salt tolerance. Validation of gene expression patterns using real-time PCR showed consistency with RNA-sequencing results, suggesting potential applications in enhancing salt tolerance in wheat through genetic engineering or molecular breeding.
Article
Plant Sciences
Fatima Rasool, Muhammad Ramzan Khan, Michael Schneider, Muhammad Uzair, Muhammad Aqeel, Wajya Ajmal, Jens Leon, Ali Ahmed Naz
Summary: This study used RNA-Seq analysis to dissect candidate genes involved in root system variations in wheat, revealing pathways related to root development and drought response. The findings provide valuable genetic resources for breeding drought-tolerant wheat varieties.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2022)
Article
Plant Sciences
Luis Abraham Chaparro-Encinas, Gustavo Santoyo, Juan Jose Pena-Cabriales, Luciano Castro-Espinoza, Fannie Isela Parra-Cota, Sergio de los Santos-Villalobos
Summary: Increasing temperature has a significant impact on durum wheat growth and gene expression, resulting in decreased traits and 283 differentially expressed genes. The enriched GO terms indicate involvement in photosynthetic acclimation, respiration, and lipid biosynthesis, among other physiological processes.
Article
Biochemistry & Molecular Biology
Wei Xi, Chenyang Hao, Tian Li, Huajun Wang, Xueyong Zhang
Summary: In this study, stress-related genes related to drought tolerance response were identified in two common wheat cultivars. The results showed that these genes are valuable resources for wheat breeding.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Di Yan, Jiajie Wang, Zhenzong Lu, Rui Liu, Yue Hong, Baocai Su, Ye Wang, Zhen Peng, Chunxin Yu, Yuerong Gao, Ziyan Liu, Zhaoshi Xu, Liusheng Duan, Runzhi Li
Summary: Exogenous melatonin improves salt tolerance in wheat seedlings by enhancing antioxidant, photoprotective, and photosynthesis activities, thus alleviating growth inhibition and oxidative damage induced by salt stress.
Review
Plant Sciences
Diana Lucia Zuluaga, Emanuela Blanco, Giacomo Mangini, Gabriella Sonnante, Pasquale Luca Curci
Summary: This review summarizes the progress made in transcriptomic resources related to durum wheat in the field of plant omics. It focuses on the mechanisms of the crop's response to abiotic and biotic stresses and the research methods used in relevant studies. The results show that mining and analyzing transcriptomic databases can help accelerate durum wheat breeding.
Article
Plant Sciences
Yu Tian, Kankan Peng, Guicheng Lou, Zhipeng Ren, Xianze Sun, Zhengwei Wang, Jinpu Xing, Chunhua Song, Jing Cang
Summary: This study is the first to explore the transcriptome of Dn1 under cold stress, and comprehensively analyzed the key genes involved in cold signal transduction and carbohydrate metabolism in Dn1 under cold stress.
Article
Genetics & Heredity
Kubilay Gurunluoglu, Muhammed Dundar, Turgay Unver, Necmettin Akpinar, Ismail Kursad Gokce, Semra Gurunluoglu, Mehmet Demircan, Ahmet Koc
Summary: This study analyzed the global gene expression profiles in patients with congenital diaphragmatic hernia (CDH) and healthy newborns, and identified 11 genes that showed significant changes in expression related to lung tissue, vascular structure development, and vitamin A metabolism. Additionally, the study found diverse expression patterns of previously claimed genes associated with CDH etiology in different patients, suggesting that CDH is a complex, multigenic anomaly.
FUNCTIONAL & INTEGRATIVE GENOMICS
(2022)
Correction
Genetics & Heredity
Kubilay Gurunluoglu, Muhammed Dundar, Turgay Unver, Necmettin Akpinar, Ismail Kursad Gokce, Semra Gurunluoglu, Mehmet Demircan, Ahmet Koc
FUNCTIONAL & INTEGRATIVE GENOMICS
(2022)
Article
Multidisciplinary Sciences
Selahattin Baris Cay, Yusuf Ulas Cinar, Selim Can Kuralay, Behcet Inal, Gokmen Zararsiz, Almila Ciftci, Rachel Mollman, Onur Obut, Vahap Eldem, Yakup Bakir, Osman Erol
Summary: The Crocus istanbulensis is an endangered species with a limited distribution range in Istanbul. This study determined the complete chloroplast genome sequences of six C. istanbulensis individuals and found low genetic diversity among them. The findings provide valuable information for further research on the molecular evolution and conservation of this species.
Editorial Material
Plant Sciences
Xiaozeng Yang, Turgay Unver, Xiuren Zhang, Lei Li
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Plant Sciences
Babar Hussain, Bala A. Akpinar, Michael Alaux, Ahmed M. Algharib, Deepmala Sehgal, Zulfiqar Ali, Gudbjorg I. Aradottir, Jacqueline Batley, Arnaud Bellec, Alison R. Bentley, Halise B. Cagirici, Luigi Cattivelli, Fred Choulet, James Cockram, Francesca Desiderio, Pierre Devaux, Munevver Dogramaci, Gabriel Dorado, Susanne Dreisigacker, David Edwards, Khaoula El-Hassouni, Kellye Eversole, Tzion Fahima, Melania Figueroa, Sergio Galvez, Kulvinder S. Gill, Liubov Govta, Alvina Gul, Goetz Hensel, Pilar Hernandez, Leonardo Abdiel Crespo-Herrera, Amir Ibrahim, Benjamin Kilian, Viktor Korzun, Tamar Krugman, Yinghui Li, Shuyu Liu, Amer F. Mahmoud, Alexey Morgounov, Tugdem Muslu, Faiza Naseer, Frank Ordon, Etienne Paux, Dragan Perovic, Gadi V. P. Reddy, Jochen Christoph Reif, Matthew Reynolds, Rajib Roychowdhury, Jackie Rudd, Taner Z. Sen, Sivakumar Sukumaran, Bahar Sogutmaz Ozdemir, Vijay Kumar Tiwari, Naimat Ullah, Turgay Unver, Selami Yazar, Rudi Appels, Hikmet Budak
Summary: Recent technological advances in next-generation sequencing have made DNA sequencing more accessible for species with large and complex genomes, including bread wheat. Despite its importance as a food crop, breeding in bread wheat has been limited by its large polyploid genome. However, after years of effort, draft and reference genome sequences of bread wheat have been released, providing valuable resources for breeding. These advances have also facilitated the use of genotyping arrays in wheat breeding, allowing for fast and reliable characterization of wheat lines. Additionally, gene-editing and genomic selection methods have shown promise in improving important traits in wheat breeding.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemical Research Methods
Ahmed Sidar Aygoren, Ebru Gunes, Selman Muslu, Ayse Gul Kasapoglu, Esma Yigider, Murat Aydin, Ilker Buyuk, Emre Ilhan
Summary: This study conducted a genome-wide analysis and in silico characterization of the SABATH gene family in Phaseolus vulgaris. It discovered 18 Pvul-SABATH proteins and examined their reactions to salt and drought stress, as well as their expression patterns when melatonin is added. The findings provide insights into the role of Pvul-SABATH genes in plant growth and development under various stresses.
PLANT MOLECULAR BIOLOGY REPORTER
(2023)
Article
Environmental Sciences
Cigdem Otur, Sezer Okay, Aslihan Kurt-Kizildogan
Summary: In this study, a psychrotolerant bacterium named Flavobacterium aziz-sancarii (F. aziz-sancarii) was isolated from the lake water of Ardley Island in Antarctica. Whole genome analysis revealed that F. aziz-sancarii has cold-inducible genes and a remarkable tolerance to potentially toxic elements and antibiotics.
Editorial Material
Genetics & Heredity
Suxu Tan, Rani Alex, Turgay Unver
FRONTIERS IN GENETICS
(2023)
Article
Biochemical Research Methods
Selman Muslu, Ayse Gul Kasapoglu, Ebru Gunes, Ahmed Sidar Aygoren, Esma Yigider, Emre Ilhan, Murat Aydin
Summary: This study investigates the GST gene family in Phaseolus vulgaris and identifies 55 Pv-GST proteins. The expression profiles of Pv-GST genes in leaf tissue of common bean under drought and salinity stress were determined using RNAseq data. qRT-PCR experiments showed that the expression levels of GST genes in common bean decreased under drought and salt stress, while melatonin treatment increased these expression levels.
PLANT MOLECULAR BIOLOGY REPORTER
(2023)
Article
Plant Sciences
Akgul Rakhimzhanova, Ayse Gul Kasapoglu, Aigul Sapakova, Emre Ilhan, Raushan Zharmukhametova, Murat Turan, Laila Zekenova, Selman Muslu, Laura Kazhygeldiyeva, Murat Aydin, Abdulkadir Ciltas
Summary: Cysteine-rich polycomb-like protein (CPP) transcription factors play a significant role in response to abiotic stresses and regulation of cell division and development in plants. This study identified and characterized the CPP genes in the Phaseolus vulgaris genome and investigated their expression patterns under stress and melatonin treatment. The findings provide a foundation for future functional genomics research on CPP genes in beans.
SOUTH AFRICAN JOURNAL OF BOTANY
(2023)
Article
Plant Sciences
Yusuf Ersali, Behcet Inal, Naci Sezgin
Summary: Efforts have been made to determine the gender of Pistacia trees at the early stage of growth. Recent research has successfully developed a reliable method using specific primers and molecular markers to identify female Pistacia trees. This method helps farmers to determine the gender of trees in advance, thus improving the crop production and profits.
BRAZILIAN JOURNAL OF BOTANY
(2023)
Article
Agriculture, Multidisciplinary
Emre Ilhan, Ayse Gul Kasapoglu, Selman Muslu, Ahmed Sidar Aygoren, Murat Aydin
Summary: In this study, the TCP transcription gene family in eucalyptus was bioinformatically investigated, and 16 TCP genes were found. The genes were classified into different clades and some gene duplications were discovered. The expression profiles of these genes in different tissues of eucalyptus were also analyzed. This study contributes to our understanding of the molecular basis of the TCP gene family in eucalyptus.
JOURNAL OF AGRICULTURAL SCIENCES-TARIM BILIMLERI DERGISI
(2023)
Article
Multidisciplinary Sciences
Emre Ilhan, Ayse Gul Kasapoglu, Aras Turkoglu, Ahmed Sidar Aygoren, Selman Muslu, Murat Aydin, Muhammed Aldaif, Kamil Haliloglu
Summary: In this study, the effects of NaN3 mutagenesis on quinoa plants were investigated. The results showed that NaN3 treatments had significant effects on genetic variations and germination parameters. These findings provide new insights for molecular breeding programs to improve quinoa genotypes and produce better varieties.
IRANIAN JOURNAL OF SCIENCE
(2023)
Article
Biology
Ozgun Firat Duzenli, Sezer Okay, Inci Kazkayasi, Ayse Filiz Oner
Summary: Tuberculosis (TB) remains a common infectious disease globally, despite the widespread use of the BCG vaccine. This study evaluates AhpC from M. bovis as a potential booster vaccine candidate for BCG-primed immunization, as it demonstrated long-lasting immune response in mice.
TURKISH JOURNAL OF BIOLOGY
(2022)
Article
Agriculture, Multidisciplinary
Sezer Okay, Sevki Adem, Aslihan Kurt-Kizildogan
Summary: The extracellular lipase from extremely halophilic archaeon Halolamina sp. was characterized for the first time in this study. The enzyme showed high resistance and stability under various conditions, making it suitable for biotechnological applications.
BIOSCIENCE JOURNAL
(2022)
