Yendi E Navarro-Noya

Autonomous University of Tlaxcala · Centro de Investigación en Ciencias Biológicas

The effectiveness of protected areas (PAs) for conservation is under debate because many of them were decreed without considering biological criteria. Efforts have been made to increase their numbers and to promote ecological connectivity among the existing PAs. In this study, we identify new priority conservation areas (PCAs) through a multi-taxa...

Background Understanding the diversity and distribution of fungal communities at a regional scale is important since fungi play a crucial role in ecosystem functioning. Our study used environmental metagenomics to determine fungal communities in mountainous forest soils in the central highlands of Mexico. Methods We used four different bioinformat...

Introduction Organic wastes are composted to increase their plant nutritional value, but little is known about how this might alter the bacterial and archaeal community structure and their genes. Methods Cow manure was collected from three local small-scale farmers and composted under controlled conditions, while the bacterial and archaeal communi...

Genome-resolved metagenomics, based on shotgun sequencing, has become a powerful strategy for investigating animal-associated microbiomes, due its heightened capability for delivering detailed taxonomic, phylogenetic, and functional insights compared to amplicon sequencing-based approaches. While genome-resolved metagenomics holds promise across va...

Forests have been globally reduced by unprecedented deforestation and habitat transformation rates, which can affect the species’ genetic structure. Understanding patterns of spatial genetic structure is fundamental for proposing conservation actions that contribute to their long-term persistence. This study evaluated the spatial genetic structure...

Endophytes play an important role in plant development, survival, and establishment, but their temporal dynamics in young conifer plants are still largely unknown. In this study, the bacterial community was determined by metabarcoding of the 16S rRNA gene in the rhizoplane, roots, and aerial parts of 1- and 5-month-old seedlings of natural populati...

In long-lived species, deforestation can modify the genetic diversity patterns of recent populations. The spatial-structure genetics of Pinus leiophylla Schiede ex Schltdl. & Cham. was investigated in adults and seedlings of remnant populations from central Mexico. Two chloroplast intergenic regions were sequenced of two cohorts (adults and seedlin...

The animal gut microbiota is strongly influenced by environmental factors that shape their temporal dynamics. Although diet is recognized as a major driver of gut micro-biota variation, dietary patterns have seldom been linked to gut microbiota dynamics in wild animals. Here, we analysed the gut microbiota variation between dry and rainy seasons ac...

The use of nanoparticles, such as titanium dioxide (TiO2-NPs), has increased substantially over the years. Some of them will end up in the soil, where their effect on plants and the soil bacterial community needs to be studied to determine their possible environmental risks. In this paper, beans (Phaseolus vulgaris L.) were cultivated in soil with...

The maternal transmission of microbiota during embryonic development of vertebrates is still poorly understood. Here, we used high-throughput sequencing of the 16S rRNA bacterial genes to determine the bacterial communities in the gastrointestinal tract and amniotic environment, i.e., the amniotic fluid, amniotic membrane and extraembryonic yolk, o...

The amount of nanoparticles that enters the environment has increased substantially in the last years. How they might affect plant characteristics and the bacterial community structure when they enter the soil, however, is still debated, as there is a continuous interaction between them. In this study, we determined the effect of silver (Ag-NPs) an...

Heavy metals are necessary at low concentration for biological activity, but they are often toxic for microorganisms at high concentrations. Amplicon sequencing of 16S rRNA and 18S rRNA was used to investigate changes in the bacterial and microeukaryotic communities in an activated sludge bioreactor incrementally contaminated with nickel (Ni), copp...

Diet composition and its ecological drivers are rarely investigated in coexisting closely related species. We used a molecular approach to characterize the seasonal variation in diet composition in four spiny lizard species inhabiting a mountainous ecosystem. DNA metabarcoding revealed that the lizards Sceloporus aeneus, S. bicanthalis, S. grammicu...

Rhizosphere and endophytic microbial communities are crucial for plant fitness and affect how plants cope with abiotic stress. In this study, we provide evidence that drought stress affected alpha and beta diversity of fungal communities associated with the roots and rhizosphere of castor bean (Ricinus communis) through metabarcoding of 18S rRNA ge...

Fecal samples or cloacal swabs are preferred over lethal dissections to study vertebrate gut microbiota for ethical reasons, but it remains unclear which nonlethal methods provide more accurate information about gut microbiota. We compared the bacterial communities of three gastrointestinal tract (GIT) segments, that is, stomach, small intestine (m...

Animals develop microbial associations (i.e., their microbiome) early in life that have been linked to changes in host development, physiology, and survival. However, microbial sources contributing to initial microbial colonization remain unclear, particularly in oviparous animals. We described a potential microbial source, the eggshell microbiome...

Deforestation has a large impact on soil fertility, especially on steep slopes, but by applying sustainable management practices, local communities in Oaxaca (Mexico) have tried to avoid the most negative effects on the forest ecosystems they manage. In this study, the characteristics and bacterial community structure were investigated from soil sa...

Plant-associated microorganisms that affect plant development, their composition, and their functionality are determined by the host, soil conditions, and agricultural practices. How agricultural practices affect the rhizosphere microbiome has been well studied, but less is known about how they might affect plant endophytes. In this study, the meta...

RESUMEN Las interacciones entre planta y microorganismos son cruciales para el desarrollo del holobionte. La estructura y funcionalidad del microbioma depende de factores bióticos y abióticos incluyendo las prácticas agrícolas. El efecto de la labranza y la fertilización con N ha sido ampliamente estudiado en la rizósfera, pero el impacto en las co...

To increase our knowledge on how application of organic material alters soil microbial populations and functionality, shotgun metagenomic sequencing was used to determine the microbial communities and their potential functionality in an arable soil amended with young maize plants (Zea mays L.) in a laboratory experiment after 3 days. The relative a...

The gut microbiota influences the phenotype and fitness of a host; however, limited information is currently available on the diversity and functions of the gut microbiota in wild animals. Therefore, we herein examined the diversity, composition, and potential functions of the gut microbiota in three Sceloporus lizards: Sceloporus aeneus, S. bicant...

Crop residue management and tillage are known to affect the soil bacterial community, but when and which bacterial groups are enriched by application of ammonium in soil under different agricultural practices from a semi-arid ecosystem is still poorly understood. Soil was sampled from a long-term agronomic experiment with conventional tilled beds a...

We studied the effect of sustainable conservation agricultural practices versus intensive conventional ones on the soil microbial diversity, potential functionality, and community assembly in rhizosphere of maize cultivated in a semiarid environment. We found that conservation agriculture practices increased the diversity of soil microbial species...

Microorganisms are often applied as biofertilizer to crops to stimulate plant growth, increase yields and reduce inorganic N application. The survival and proliferation of these allochthonous microorganisms in soil is a necessary requisite for them to promote plant growth. We applied a sterilized or unsterilized not commercialized bacterial consort...

Land-use change is one of the most important drivers of change in biodiversity. Deforestation for grazing or agriculture has transformed large areas of temperate forest in the central highlands of Mexico, but its impact on soil fungal communities is still largely unknown. In this study, we determined how deforestation of a high-altitude temperate f...

We studied three soils of the former lake Texcoco with different electrolytic conductivity (1.9 dS m−1, 17.3 dS m−1, and 33.4 dS m−1) and pH (9.3, 10.4, and 10.3) amended with young maize plants and their neutral detergent fibre (NDF) fraction and aerobically incubated in the laboratory for 14 days while the soil bacterial community structure was m...

Introduction: Halophiles can be found in hypersaline environments and they can synthesize products of industrial interest. Method: In this work, 37 bacterial strains were isolated from the sediment of a dried-out maar of the “Hoya Rincón de Parangueo” (Mexico) on different culture media with 20% NaCl and pH 9, while potential industrial extracellu...

Rhizosphere and root endophytic bacteria are crucial for plant development, but the question remains if their composition is similar and how environmental conditions, such as water content, affect their resemblance. Ricinus communis L., a highly drought resistant plant, was used to study how varying soil water content affected the bacterial communi...

Agricultural practices and changes in soil conditions, such as water content, inorganic N content, temperature, pH and organic material availability, affect the bacterial community structure. Soil characteristics and the bacterial community structure were monitored in soil with maize (Zea mays L.) and wheat (Triticum aestivum L.) rotation, zero til...

PurposeImplementing practices that maximize water use efficiency in arid zones is important as agriculture relies mostly on irrigation in these agroecosystems. The aim of this study was to identify the effect of combining different sowing irrigation methods (dry and wet) with contrasting tillage practices (conventional practices and conservation ag...

Ammonia-oxidizing bacteria (AOB) and aerobic methane oxidizing-bacteria (MOB) were studied in three extreme soils of the former Lake Texcoco, Mexico, with pH ranging from 8.5 to 10.5 and electrolytic conductivity (EC) from 0.67 to 84.76 dS m−1, and in two arable soils. Soil DNA was extracted with three different methods and total DNA was used as a...

Background: High-altitude ecosystems are extreme environments that generate specific physiological, morphological, and behavioral adaptations in ectotherms. The shifts in gut microbiota of the ectothermic hosts as an adaptation to environmental changes are still largely unknown. We investigated the food ingested and the bacterial, fungal, and prot...

Land‐use change has been identified as the most severe threat to biodiversity. Soils are important biodiversity reservoirs, but to what extent conversion of high altitude temperate forest to arable land affects taxonomic and functional soil biodiversity is still largely unknown. Shotgun metagenomics was used to determine the taxonomic and functiona...

Purpose The “Hoya del Rincón de Parangueo (HRP)” is a maar that contained a perennial alkaline lake that drained in the 1980s so that a sediment with high pH and extreme salinity remained. The aim of this work was to determine how the bacterial and archaeal community was controlled by these extreme conditions. Materials and methods Sediment sample...

Background Terrestrial ecosystems play a significant role in carbon (C) storage. Human activities, such as urbanization, infrastructure, and land use change, can reduce significantly the C stored in the soil. The aim of this research was to measure the spatial variability of soil organic C (SOC) in the national park La Malinche (NPLM) in the centra...

The amount of nanoparticles (NP), such as TiO 2 , has increased substantially in the environment. It is still largely unknown, however, how NP might interact with earthworms and organic material and how this might affect the bacterial community structure and their functionality. Therefore, an arable soil was amended with TiO 2 NP at 0, 150 or 300 m...

Background: A great number of studies have shown that the distribution of microorganisms in the soil is not random, but that their abundance changes along environmental gradients (spatial patterns). The present study examined the spatial variability of the physicochemical characteristics of an extreme alkaline saline soil and how they controlled t...

Agricultural practices affect the bacterial community structure, but how they determine the response of the bacterial community to drought, is still largely unknown. Conventional cultivated soil, i.e., inorganic fertilization, tillage, crop residue removal and maize (Zea mays L.) monoculture, and traditional organic farmed soil “milpa,” i.e., minim...

Livestock farms has adopted anaerobic digestion reactors (biodi-gesters) technology as an economically viable way for wastetreatment and energy production. Methane (CH4), the main pro-duced gas from this process is widely used in Europe, whilein Latin America, e.g., Mexico, has been recently introduced. Abiodigester (lagoon type) installed at a pig...

Extreme salinity and alkalinity in soil is known to inhibit organic material decomposition and affect the bacterial community structure involved in its mineralization. Regular flooding of these soils will reduce salinity, which will alter the bacterial community involved in organic material mineralization. Soil of the former lake Texcoco with elect...

Toxic compounds, such as 4-chlorophenol (4-CP), which is a common pollutant in wastewater, are removed efficiently from sequencing batch reactors (SBRs) by microorganisms. The bacterial community in aerobic granules formed during the removal of 4-CP in a SBR was monitored for 63days. The SBR reactor was operated with a constant filling and withdraw...

Biogas production from animal waste is an economically viable way to reduce environmental pollution and produce valuable products, i.e., methane and a nutrient-rich organic waste product. An anaerobic digestion reactor for biogas production from pig waste was sampled at the entrance, middle (digestion chamber), and exit of a digester, while the bac...

Agricultural practices, such as crop residue management and tillage, change biological, physical and chemical soil characteristics. The aim of this study was to investigate the effect of the application of bean plant residue (Phaseolus vulgaris L.), one of the major crops in Mexico, on the bacterial community structure in soil cultivated convention...

Biodegradation of phenolic compounds in bioreactors is well documented, but the changes in the bacterial populations dynamics during degradation were not that often. A glass bubble column used as reactor was inoculated with activated sludge, spiked with 2-chlorophenol, phenol and m-cresol after 28 days and maintained for an additional 56 days, whil...

Regular flooding of the soil to reduce salinity will change soil characteristics, but also the microbial community structure. Soil of the former lake Texcoco with electrolytic conductivity (EC) 157.4 dS m-1 and pH 10.3 was flooded monthly in the laboratory under controlled conditions for 10 months while soil characteristics were determined and the...