University of the Philippines Baguio

In this paper, we present an approach that extends the Particle Swarm Optimization (PSO) algorithm to handle multiobjective optimization problems by incorporating the mechanism of crowding distance computation into the algorithm of PSO, specifically on global best selection and in the deletion method of an external archive of nondominated solutions. The crowding distance mechanism together with a mutation operator maintains the diversity of nondominated solutions in the external archive. The performance of this approach is evaluated on test functions and metrics from literature. The results show that the proposed approach is highly competitive in converging towards the Pareto front and generates a well distributed set of nondominated solutions.

Conducting research, more so, fieldwork, changes every researcher in many ways. This paper shares the various reflexivities – the journeys of learning – that we underwent as field researchers. Here, we share the changes brought about to ourselves, as a result of the research process, and how these changes have affected the research process. It highlights the journey of discovering how we, as researchers, shaped and how we were shaped by the research process and outputs. All these efforts were done in our attempts to discover and understand various social phenomena and issues such as poverty, development, gender, migration, and ill health in the Philippines. This article includes the challenges encountered in our epistemological stance/s and personal and methodological concerns shown in our reflexivity notes/insights. Indeed, it is when researchers acknowledge these changes, that reflexivity in research constitutes part of the research findings. It is through this consciousness of the relational and reflective nature of being aware of personal and methodological concerns that we honor ourselves, our teammates/co-researchers and all others involved with the research project. As researchers, we need to be cognizant of our contributions to the construction of meanings and of lived experiences throughout the research process. We need to acknowledge that indeed it is impossible to remain “outside of” one's study topic while conducting research.

Working with indigenous and local knowledge (ILK) is vital for inclusive assessments of nature and nature’s linkages with people. Indigenous peoples’ concepts about what constitutes sustainability, for example, differ markedly from dominant sustainability discourses. The Intergovernmental Platform on Biodiversity and Ecosystems Services (IPBES) is promoting dialogue across different knowledge systems globally. In 2017, member states of IPBES adopted an ILK Approach including: procedures for assessments of nature and nature’s linkages with people; a participatory mechanism; and institutional arrangements for including indigenous peoples and local communities. We present this Approach and analyse how it supports ILK in IPBES assessments through: respecting rights; supporting care and mutuality; strengthening communities and their knowledge systems; and supporting knowledge exchange. Customary institutions that ensure the integrity of ILK, effective empowering dialogues, and shared governance are among critical capacities that enable inclusion of diverse conceptualizations of sustainability in assessments.

This survey on the modernity of ethnomathematics addresses numerous themes related to both ethnomathematics and mathematics education. It offers a broader view of mathematics, including ideas, procedu

BACKGROUND: Dramatic increases in the migration of human resources for health (HRH) from developing countries like the Philippines can have consequences on the sustainability of health systems. In this paper, we trace the outflows of HRH from the Philippines, map out its key causes and consequences, and identify relevant policy responses. METHODS: This mixed method study employed a decentered, comparative approach that involved three phases: (a) a scoping review on health workers' migration of relevant policy documents and academic literature on health workers' migration from the Philippines; and primary data collection with (b) 37 key stakeholders and (c) household surveys with seven doctors, 329 nurses, 66 midwives, and 18 physical therapists. RESULTS: Filipino health worker migration is best understood within the context of macro-, meso-, and micro-level factors that are situated within the political, economic, and historical/colonial legacy of the country. Underfunding of the health system and un- or underemployment were push factors for migration, as were concerns for security in the Philippines, the ability to practice to full scope or to have opportunities for career advancement. The migration of health workers has both negative and positive consequences for the Philippine health system and its health workers. Stakeholders focused on issues such as on brain drain, gain, and circulation, and on opportunities for knowledge and technology transfer. Concomitantly, migration has resulted in the loss of investment in human capital. The gap in the supply of health workers has affected the quality of care delivered, especially in rural areas. The opening of overseas opportunities has commercialized health education, compromised its quality, and stripped the country of skilled learning facilitators. The social cost of migration has affected émigrés and their families. At the household level, migration has engendered increased consumerism and materialism and fostered dependency on overseas remittances. Addressing these gaps requires time and resources. At the same time, migration is, however, seen by some as an opportunity for professional growth and enhancement, and as a window for drafting more effective national and inter-country policy responses to HRH mobility. CONCLUSIONS: Unless socioeconomic conditions are improved and health professionals are provided with better incentives, staying in the Philippines will not be a viable option. The massive expansion in education and training designed specifically for outmigration creates a domestic supply of health workers who cannot be absorbed by a system that is underfunded. This results in a paradox of underservice, especially in rural and remote areas, at the same time as underemployment and outmigration. Policy responses to this paradox have not yet been appropriately aligned to capture the multilayered and complex nature of these intersecting phenomena.

The post-translational modification of an L- to a D-amino acid has been documented in relatively few gene products, mostly in small peptides under 10 amino acids in length. In this report, we demonstrate that a 46-amino acid polypeptide toxin has one D-phenylalanine at position 44, and that the epimerization from an L-Phe to a D-Phe has a dramatic effect on the excitatory effects of the peptide. In one electrophysiological assay carried out, the D-Phe-containing peptide was extremely potent, whereas the unmodified polypeptide had no biological activity, demonstrating that the chirality of the post-translationally modified amino acid is functionally significant. The peptide toxin analyzed, r11a, belongs to the I-gene superfamily of conotoxins that has four disulfide cross-links. The D-Phe in r11a is at the third amino acid from the C terminus, the same relative position from the C-terminal end as the d-amino acid in omega-agatoxin TK from a spider, an unrelated peptide. Thus, although post-translational amino acid isomerization appears to have no strong specificity for the chemical nature of the amino acid side chain, the few peptides where this modification has been established suggest that there may be favored positions near the N or C terminus that are preferential sites for isomerization to a D-amino acid.

A new class of Conus peptides, the I-superfamily of conotoxins, has been characterized using biochemical, electrophysiological and molecular genetic methods. Peptides in this superfamily have a novel pattern of eight Cys residues. Five peptides that elicited excitatory symptomatology, r11a, r11b, r11c, r11d and r11e, were purified from Conus radiatus venom; four were tested on amphibian peripheral axons and shown to elicit repetitive action potentials, consistent with being members of the 'lightning-strike cabal' of toxins that effect instant immobilization of fish prey. A parallel analysis of Conus cDNA clones revealed a new class of conotoxin genes that was particularly enriched (with 18 identified paralogues) in a Conus radiatus venom duct library; several C. radiatus clones encoded the excitatory peptides directly characterized from venom. The remarkable diversity of related I-superfamily peptides within a single Conus species is unprecedented. When combined with the excitatory effects observed on peripheral circuitry, this unexpected diversity suggests a corresponding molecular complexity of the targeted signaling components in peripheral axons; the I-conotoxin superfamily should provide a rich lode of pharmacological tools for dissecting and understanding these. Thus, the I-superfamily conotoxins promise to provide a significant new technology platform for dissecting the molecular components of axons.

Most of the >50,000 different pharmacologically active peptides in Conus venoms belong to a small number of gene superfamilies. In this work, the M-conotoxin superfamily is defined using both biochemical and molecular criteria. Novel excitatory peptides purified from the venoms of the molluscivorous species Conus textile and Conus marmoreus all have a characteristic pattern of Cys residues previously found in the mu-, kappaM-, and psi-conotoxins (CC-C-C-CC). The new peptides are smaller (12-19 amino acids) than the mu-, kappaM-, and psi-conotoxins (22-24 amino acids). One peptide, mr3a, was chemically synthesized in a biologically active form. Analysis of the disulfide bridges of a natural peptide tx3c from C. textile and synthetic peptide mr3a from C. marmoreus showed a novel pattern of disulfide connectivity, different from that previously established for the mu- and psi-conotoxins. Thus, these peptides belong to a new group of structurally and pharmacologically distinct conotoxins that are particularly prominent in the venoms of mollusc-hunting Conus species. Analysis of cDNA clones encoding the novel peptides as well as those encoding mu-, kappaM-, and psi-conotoxins revealed highly conserved amino acid residues in the precursor sequences; this conservation in both amino acid sequence and in the Cys pattern defines a gene superfamily, designated the M-conotoxin superfamily. The peptides characterized can be provisionally assigned to four distinct groups within the M-superfamily based on sequence similarity within and divergence between each group. A notable feature of the superfamily is that two distinct structural frameworks have been generated by changing the disulfide connectivity on an otherwise conserved Cys pattern.

The plant microbiome is a key determinant of plant health. Less is known about the phyllosphere microbiota and its driving factors in built environments. To study the variability of the microbiome in relation to plant genotype and climate under different controlled conditions, we investigated 14 phylogenetically diverse plant species grown in the greenhouses of the Botanical Garden in Graz (Austria). All investigated plants showed specific bacterial abundances of up to 10(6) CFU cm(-2) on their leaves. Bacterial diversity (H('): 2.4-7.9) and number of putative OTUs (461-2013) were strongly plant species dependent. Statistical analysis showed a significantly higher correlation of community composition to plant genotype in comparison to the ambient climatic variables. In addition to the microbiome structure, we studied the antagonistic potential towards the foliar pathogen Botrytis cinerea as functional indicator. A high proportion of isolates (up to 58%) were able to inhibit pathogen growth by production of volatile organic compounds (VOCs). Data of structure and function were linked: frequently isolated VOCs producers (e.g. Bacillus and Stenotrophomonas) were highly present in phyllosphere communities, which were dominated by members of Firmicutes This study indicates that indoor ornamentals feature a distinct, stable microbiota on leaves irrespective of the indoor climate.

The 500 different species of venomous cone snails (genus Conus) use small, highly structured peptides (conotoxins) for interacting with prey, predators, and competitors. These peptides are produced by translating mRNA from many genes belonging to only a few gene superfamilies. Each translation product is processed to yield a great diversity of different mature toxin peptides (approximately 50,000-100,000), most of which are 12-30 aa in length with two to three disulfide crosslinks. In vitro, forming the biologically relevant disulfide configuration is often problematic, suggesting that in vivo mechanisms for efficiently folding the diversity of conotoxins have been evolved by the cone snails. We demonstrate here that the correct folding of a Conus peptide is facilitated by a posttranslationally modified amino acid, gamma-carboxyglutamate. In addition, we show that multiple isoforms of protein disulfide isomerase are major soluble proteins in Conus venom duct extracts. The results provide evidence for the type of adaptations required before cone snails could systematically explore the specialized biochemical world of "microproteins" that other organisms have not been able to systematically access. Almost certainly, additional specialized adaptations for efficient microprotein folding are required.

We argue that solutions-based research must avoid treating climate change as a merely technical problem, recognizing instead that it is symptomatic of the history of European and North American colonialism. It must therefore be addressed by decolonizing the research process and transforming relations between scientific expertise and the knowledge systems of Indigenous Peoples and of local communities. Partnership across diverse knowledge systems can be a path to transformative change only if those systems are respected in their entirety, as indivisible cultural wholes of knowledge, practices, values, and worldviews. This argument grounds our specific recommendations for governance at the local, national, and international scales. As concrete mechanisms to guide collaboration across knowledge systems, we propose a set of instruments based on the principles of consent, intellectual and cultural autonomy, and justice. We recommend these instruments as tools to ensure that collaborations across knowledge systems embody just partnerships in support of a decolonial transformation of relations between human communities and between humanity and the more-than-human world.

We previously characterized contryphan-R, a D-tryptophan-containing octapeptide from the venom of Conus radiatus. In this study, we present evidence that the contryphan family of peptides is widely distributed in venoms of the fish-hunting cone snails. We purified, synthesized and characterized contryphan-Sm from Conus stercusmuscarum venom, and obtained molecular evidence for the existence of a third peptide, contryphan-P from Conus purpurascens venom ducts. The sequences of these three contryphans showed identity in seven of eight amino acids and a conserved pattern of post-translational modification. We also demonstrate that contryphan-Sm equilibrates between two distinct conformational states.

Post-translational isomerization of l-amino acids to d-amino acids is a subtle modification, not detectable by standard techniques such as Edman sequencing or MS. Accurate predictions require more sequences of modified polypeptides. A 46-amino-acid-long conotoxin, r11a, belonging to the I-superfamily was previously shown to have a d-Phe residue at position 44. In this report, we characterize two related peptides, r11b and r11c, with d-Phe and d-Leu, respectively, at the homologous position. Electrophysiological tests show that all three peptides induce repetitive activity in frog motor nerve, and epimerization of the single amino acid at the third position from the C-terminus attenuates the potency of r11a and r11b, but not that of r11c. Furthermore, r11c (but neither r11a nor r11b) also acts on skeletal muscle. We identified more cDNA clones encoding conopeptide precursors with Cys patterns similar to r11a/b/c. Although the predicted mature toxins have the same cysteine patterns, they belong to two different gene superfamilies. A potential correlation between the identity of the gene superfamily to which the I-conotoxin belongs and the presence or absence of a d-amino acid in the primary sequence is discussed. The great diversity of I-conopeptide sequences provides a rare opportunity for defining parameters that may be important for this most stealthy of all post-translational modifications. Our results indicate that neither the chemical nature of the side chain nor the precise vicinal sequence around the modified residue seem to be critical, but there may be favored loci for isomerization to a d-amino acid.

Abstract This paper deals with the solution, stability character and asymptotic behavior of the rational difference equation <m:math xmlns:m="http://www.w3.org/1998/Math/MathML"> <m:mtable> <m:mtr> <m:mtd> <m:mstyle> <m:msub> <m:mi>x</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>+</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> <m:mo>=</m:mo> <m:mfrac> <m:mrow> <m:mi>α</m:mi> <m:msub> <m:mi>x</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>−</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> <m:mo>+</m:mo> <m:mi>β</m:mi> </m:mrow> <m:mrow> <m:mi>γ</m:mi> <m:msub> <m:mi>x</m:mi> <m:mrow> <m:mi>n</m:mi> </m:mrow> </m:msub> <m:msub> <m:mi>x</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>−</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> </m:mrow> </m:mfrac> <m:mo>,</m:mo> <m:mspace/> <m:mi>n</m:mi> <m:mo>∈</m:mo> <m:msub> <m:mrow> <m:mi>N</m:mi> </m:mrow> <m:mrow> <m:mn>0</m:mn> </m:mrow> </m:msub> <m:mo>,</m:mo> </m:mstyle> </m:mtd> </m:mtr> </m:mtable> </m:math> $$\begin{array}{} \displaystyle x_{n+1}=\frac{\alpha x_{n-1}+\beta}{ \gamma x_{n}x_{n-1}},\qquad n \in \mathbb{N}_{0}, \end{array}$$ where ℕ 0 = ℕ ∪ {0}, α , β , γ ∈ ℝ + , and the initial conditions x –1 and x 0 are non zero real numbers such that their solutions are associated to generalized Padovan numbers. Also, we investigate the two-dimensional case of the this equation given by <m:math xmlns:m="http://www.w3.org/1998/Math/MathML"> <m:mtable> <m:mtr> <m:mtd> <m:mstyle> <m:msub> <m:mi>x</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>+</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> <m:mo>=</m:mo> <m:mfrac> <m:mrow> <m:mi>α</m:mi> <m:msub> <m:mi>x</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>−</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> <m:mo>+</m:mo> <m:mi>β</m:mi> </m:mrow> <m:mrow> <m:mi>γ</m:mi> <m:msub> <m:mi>y</m:mi> <m:mi>n</m:mi> </m:msub> <m:msub> <m:mi>x</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>−</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> </m:mrow> </m:mfrac> <m:mo>,</m:mo> <m:mspace/> <m:msub> <m:mi>y</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>+</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> <m:mo>=</m:mo> <m:mfrac> <m:mrow> <m:mi>α</m:mi> <m:msub> <m:mi>y</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>−</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> <m:mo>+</m:mo> <m:mi>β</m:mi> </m:mrow> <m:mrow> <m:mi>γ</m:mi> <m:msub> <m:mi>x</m:mi> <m:mi>n</m:mi> </m:msub> <m:msub> <m:mi>y</m:mi> <m:mrow> <m:mi>n</m:mi> <m:mo>−</m:mo> <m:mn>1</m:mn> </m:mrow> </m:msub> </m:mrow> </m:mfrac> <m:mo>,</m:mo>

We have purified a novel paralytic peptide with 32 AA and a single disulfide bond from the venom of Conus parius, a fish-hunting species. The peptide has the following sequence: TYGIYDAKPOFSCAGLRGGCVLPONLROKFKE-NH2, where O is 4-trans-hydroxyproline. The peptide, designated alphaC-conotoxin PrXA (alphaC-PrXA), is the defining member of a new, structurally distinct family of Conus peptides. The peptide is a competitive nAChR antagonist; all previously characterized conotoxins that competitively antagonize nAChRs are structurally and genetically unrelated. (Most belong to the alpha- and alphaA-conotoxin families.) When administered to mice and fish in vivo, alphaC-PrXA caused paralysis and death. In electrophysiological assays, alphaC-PrXA potently antagonized mouse muscle nicotinic acetylcholine receptors (nAChRs), with IC50 values of 1.8 and 3.0 nM for the adult (alpha1beta1 epsilondelta subunits) and fetal (alpha1beta1 gammadelta subunits) muscle nAChR subtypes, respectively. When tested on a variety of ligand-gated and voltage-gated ion channels, alphaC-PrXA proved to be a highly specific inhibitor of the neuromuscular nAChR. The peptide competes with alpha-bungarotoxin for binding at the alpha/delta and alpha/gamma subunit interfaces of the nAChR, with higher affinity for the alpha/delta subunit interface. AlphaC-PrXA is strikingly different from the many conopeptides shown to be nicotinic antagonists; it is most similar in its general biochemical features to the snake toxins known as Waglerins.

Abstract With many coral reef areas being degraded whether by anthropogenic or natural causes, a search is on for resilient species of corals that can restore coral cover where needed, if coral reefs are to continue to provide adequate ecosystem services. A series of experiments were undertaken in two sites with different environmental attributes and substrates in a lagoonal area in the northwestern Philippines to test the potentials of a local species, Porites cylindrica , for reef rehabilitation. With the use of asexual fragmentation of donor colonies, different treatments were tested, particularly to determine if the species would survive on different substrates, that is, solid, massive versus digitate/anastomosing, dead colonies. The results after nearly 2 years of the experiment were extraordinarily successful, with survival of transplants ranging from a high of 98% to a low of 80% of colonies, resulting in extensive coral cover on both original and new or different substrate from the original. A subsequent observation after another 16 months showed the coral cover to have been complete or nearly complete in the experimental plots, with the transplanted colonies fusing, and with evident reef fish communities where there were none before. Had there been no intervention, it is highly likely that the reefs would have remained in a degraded state .

We report the discovery and characterization of three conantokin peptides from the venom of Conus parius. Each peptide (conantokin-Pr1, -Pr2, and -Pr3) contains 19 amino acids with three gamma-carboxyglutamate (Gla) residues, a post-translationally modified amino acid characteristic of conantokins. The new peptides contain several amino acid residues that differ from previous conantokin consensus sequences. Notably, the new conantokins lack Gla at the 3rd position from the N terminus, where the Gla residue is replaced by either aspartate or by another post-translationally modified residue, 4-trans-hydroxyproline. Conantokin-Pr3 is the first conantokin peptide to have three different post-translational modifications. Conantokins-Pr1 and -Pr2 adopt alpha-helical conformations in the presence of divalent cations (Mg2+ and Ca2+) but are generally unstructured in the absence of divalent cations. Conantokin-Pr3 adopts an alpha-helical conformation even in the absence of divalent cations. Like other conantokins, the new peptides induced sleep in young mice and hyperactivity in older mice upon intracranial injection. Electrophysiological assays confirmed that conantokins-Pr1, -Pr2, and -Pr3 are N-methyl-d-aspartate (NMDA) receptor antagonists, with highest potency for NR2B-containing NMDA receptors. Conantokin-Pr3 demonstrated approximately 10-fold selectivity for NR2B-containing NMDA receptors. However, conantokin-Pr2 showed minimal differences in potency between NR2B and NR2D. Conantokins-Pr1, -Pr2, and -Pr3 all demonstrated high specificity of block for NMDA receptors, when tested against various ligand-gated ion channels. Conus parius conantokins allow for a better definition of structural and functional features of conantokins as ligands targeting NMDA receptors.

Soil erosion is a global geological hazard which can be mitigated through better future land-use planning. In the current research, a Dempster-Shafer-based evidential belief function (EBF) and frequency ratio (FR) were used to map the soil erosion susceptible areas and their outcomes were compared subsequently. These methods were selected due to their efficiency and popularity in natural hazard studies. Moreover, the application of EBF is poorly examined in this area of research. Nine conditioning factors belonging to the current time, and rainfall intensity for the two time periods of current time and 2100 based on the A2 scenario CSIRO global climate model, were utilized in this research. The main aim was to estimate and compare the soil erosion hazards at Southern Luzon in the Philippines under two time periods, current time and 2100. This region has been highly affected by erosion and has not received much attention in the past. The area under the curve outcomes indicated that the FR model produced 70.6% prediction rate, while EBF showed superior prediction accuracy with a rate of 83.1%. The results also project that soil erosion hazards in the Philippines will increase due to changes in rainfall patterns by 2100.

Signals from cones are recombined in postreceptoral channels [luminance, L + M; red-green, L - M; blue-yellow, S - (L + M)]. The melanopsin-containing retinal ganglion cells are also active at daytime light levels and recent psychophysical results suggest that melanopsin contributes to conscious vision in humans. Here, we measured BOLD fMRI responses to spectral modulations that separately targeted the postreceptoral cone channels and melanopsin. Responses to spatially uniform (27.5° field size, central 5° obscured) flicker at 0.5, 1, 2, 4, 8, 16, 32, and 64 Hz were recorded from areas V1, V2/V3, motion-sensitive area MT, and the lateral occipital complex. In V1 and V2/V3, higher temporal sensitivity was observed to L + M + S (16 Hz) compared with L - M flicker (8 Hz), consistent with psychophysical findings. Area MT was most sensitive to rapid (32 Hz) flicker of either L + M + S or L - M. We found S cone responses only in areas V1 and V2/V3 (peak frequency: 4-8 Hz). In addition, we studied an L + M modulation and found responses that were effectively identical at all temporal frequencies to those recorded for the L + M + S modulation. Finally, we measured the cortical response to melanopsin-directed flicker and compared this response with control modulations that addressed stimulus imprecision and the possibility of stimulation of cones in the shadow of retinal blood vessels (penumbral cones). For our stimulus conditions, melanopsin flicker did not elicit a cortical response exceeding that of the control modulations. We note that failure to control for penumbral cone stimulation could be mistaken for a melanopsin response. SIGNIFICANCE STATEMENT: The retina contains cone photoreceptors and ganglion cells that contain the photopigment melanopsin. Cones provide brightness and color signals to visual cortex. Melanopsin influences circadian rhythm and the pupil, but its contribution to cortex and perception is less clear. We measured the response of human visual cortex with fMRI using spectral modulations tailored to stimulate the cones and melanopsin separately. We found that cortical responses to cone signals vary systematically across visual areas. Differences in temporal sensitivity for achromatic, red-green, and blue-yellow stimuli generally reflect the known perceptual properties of vision. We found that melanopsin signals do not produce a measurable response in visual cortex at temporal frequencies between 0.5 and 64 Hz at daytime light levels.

planning, policy, and practice